National Center for Biotechnology Information (NCBI)
welcome to the blast network service.
PEPTIDE SEQUENCE DATABASES
nr Non-redundant GenBank CDS translations+PDB+SwissProt+PIR
month All new or revised GenBank CDS translation+PDB+SwissProt+PIR
sequences released in the last 30 days
pdb PDB protein sequences
yeast Yeast (Saccharomyces cerevisiae) protein sequences.
kabat Kabat Sequences of Proteins of Immunological Interest
alu * Translations of Select Alu Repeats from REPBASE
swissprot SwissProt sequences
NUCLEOTIDE SEQUENCE DATABASES
nr Non-redundant GenBank+EMBL+DDBJ+PDB sequences
(but no EST, STS, GSS, or HTGS sequences)
month All new or revised GenBank+EMBL+DDBJ+PDB sequences released in
the last 30 days
yeast Yeast (Saccharomyces cerevisiae) genomic nucleotide sequences.
est + Non-redundant Database of GenBank+EMBL+DDBJ EST Division
sts + Non-redundant Database of GenBank+EMBL+DDBJ STS Division
htgs High Throughput Genomic Sequences
pdb PDB nucleotide sequences
vector Vector subset of GenBank
mito * Database of mitochondrial sequences, Rel. 1.0, July 1995
gss Genome Survey Sequences (includes single-pass genomic data, exon-
trapped sequences, and Alu PCR primers.
kabat Kabat Sequences of Nucleic Acid of Immunological Interest
epd Eukaryotic Promotor Database
alu *+ Select Alu Repeats from REPBASE
BLASTP 2.2.3 [Apr-24-2002]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= orf1 [1-17]
(16 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.337 0.147 0.000
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,249,980
Number of Sequences: 922426
Number of extensions: 31270
Number of successful extensions: 41
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 41
Number of HSP's gapped (non-prelim): 0
length of query: 16
length of database: 289,484,438
effective HSP length: 0
effective length of query: 24
effective length of database: 289,484,438
effective search space: 6947626512
effective search space used: 6947626512
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 85 (37.4 bits)
Query= orf2 [69-143]
(73 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.322 0.133 0.000
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,906,221
Number of Sequences: 922426
Number of extensions: 924199
Number of successful extensions: 2107
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2107
Number of HSP's gapped (non-prelim): 0
length of query: 73
length of database: 289,484,438
effective HSP length: 49
effective length of query: 24
effective length of database: 244,285,564
effective search space: 5862853536
effective search space used: 5862853536
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf3 [155-208]
(52 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570311.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 104 2e-022
>ref|NP_570311.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73249.1| (AF338467) unknown [Cyanophage P60]
Length = 83
Score = 104 bits (259), Expect = 2e-022
Identities = 52/52 (100%), Positives = 52/52 (100%)
Query: 1 MTNEQRANAAIRRYQAEQRKQQLFYFAEMALTRTEALQCLREAALLEAFHNV 52
MTNEQRANAAIRRYQAEQRKQQLFYFAEMALTRTEALQCLREAALLEAFHNV
Sbjct: 32 MTNEQRANAAIRRYQAEQRKQQLFYFAEMALTRTEALQCLREAALLEAFHNV 83
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.325 0.128 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,112,499
Number of Sequences: 922426
Number of extensions: 379260
Number of successful extensions: 1204
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1203
Number of HSP's gapped (non-prelim): 1
length of query: 52
length of database: 289,484,438
effective HSP length: 28
effective length of query: 24
effective length of database: 263,656,510
effective search space: 6327756240
effective search space used: 6327756240
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 84 (37.0 bits)
Query= orf4 [347-401]
(53 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570313.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 110 3e-024
>ref|NP_570313.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73251.1| (AF338467) unknown [Cyanophage P60]
Length = 53
Score = 110 bits (275), Expect = 3e-024
Identities = 53/53 (100%), Positives = 53/53 (100%)
Query: 1 MSIYQDYRQKAPQGAYKRPQAGFQTVWVQSHLQQAEARTEALRAQHIESTATF 53
MSIYQDYRQKAPQGAYKRPQAGFQTVWVQSHLQQAEARTEALRAQHIESTATF
Sbjct: 1 MSIYQDYRQKAPQGAYKRPQAGFQTVWVQSHLQQAEARTEALRAQHIESTATF 53
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.317 0.124 0.000
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,803,597
Number of Sequences: 922426
Number of extensions: 624455
Number of successful extensions: 1309
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1308
Number of HSP's gapped (non-prelim): 1
length of query: 53
length of database: 289,484,438
effective HSP length: 29
effective length of query: 24
effective length of database: 262,734,084
effective search space: 6305618016
effective search space used: 6305618016
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 84 (37.0 bits)
Query= orf5 [403-468]
(64 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570314.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 140 2e-033
>ref|NP_570314.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73252.1| (AF338467) unknown [Cyanophage P60]
Length = 64
Score = 140 bits (354), Expect = 2e-033
Identities = 64/64 (100%), Positives = 64/64 (100%)
Query: 1 MSYHHIDMDSFLQSCEDAYYNELDWQIMLCDVTDVELAQCYEASLDGNGPVPLYLVTWES 60
MSYHHIDMDSFLQSCEDAYYNELDWQIMLCDVTDVELAQCYEASLDGNGPVPLYLVTWES
Sbjct: 1 MSYHHIDMDSFLQSCEDAYYNELDWQIMLCDVTDVELAQCYEASLDGNGPVPLYLVTWES 60
Query: 61 STGA 64
STGA
Sbjct: 61 STGA 64
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.319 0.134 0.000
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,951,853
Number of Sequences: 922426
Number of extensions: 1227460
Number of successful extensions: 1891
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1890
Number of HSP's gapped (non-prelim): 1
length of query: 64
length of database: 289,484,438
effective HSP length: 40
effective length of query: 24
effective length of database: 252,587,398
effective search space: 6062097552
effective search space used: 6062097552
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 84 (37.0 bits)
Query= orf6 [539-692]
(152 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570315.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 253 5e-067
>ref|NP_570315.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73253.1| (AF338467) unknown [Cyanophage P60]
Length = 120
Score = 253 bits (645), Expect = 5e-067
Identities = 120/120 (100%), Positives = 120/120 (100%)
Query: 33 MICLRNARFAGQAYRTIRHEALHVAQYCNGWRPLKPDLSDYFISRAQDNGWHILGYPEHQ 92
MICLRNARFAGQAYRTIRHEALHVAQYCNGWRPLKPDLSDYFISRAQDNGWHILGYPEHQ
Sbjct: 1 MICLRNARFAGQAYRTIRHEALHVAQYCNGWRPLKPDLSDYFISRAQDNGWHILGYPEHQ 60
Query: 93 WRVEAEARVWLIGTQHKKLPAHSVSIASEPMNETELIARQLRRETEQGVEARKRLKAPKQ 152
WRVEAEARVWLIGTQHKKLPAHSVSIASEPMNETELIARQLRRETEQGVEARKRLKAPKQ
Sbjct: 61 WRVEAEARVWLIGTQHKKLPAHSVSIASEPMNETELIARQLRRETEQGVEARKRLKAPKQ 120
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.322 0.137 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 91,711,460
Number of Sequences: 922426
Number of extensions: 3536751
Number of successful extensions: 6298
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6297
Number of HSP's gapped (non-prelim): 1
length of query: 152
length of database: 289,484,438
effective HSP length: 109
effective length of query: 43
effective length of database: 188,940,004
effective search space: 8124420172
effective search space used: 8124420172
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 85 (37.4 bits)
Query= orf7 [719-783]
(63 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.311 0.126 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,856,835
Number of Sequences: 922426
Number of extensions: 416053
Number of successful extensions: 156
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 156
Number of HSP's gapped (non-prelim): 0
length of query: 63
length of database: 289,484,438
effective HSP length: 39
effective length of query: 24
effective length of database: 253,509,824
effective search space: 6084235776
effective search space used: 6084235776
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf8 [782-1438]
(655 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570316.1| (NC_003390) RNA polymerase [Cyanophage P60... 1159 0.0
ref|NP_177063.1| (NM_105571) DNA-directed RNA polymerase [A... 192 1e-047
emb|CAA69331.1| (Y08137) mitochondrial single-subunit DNA-d... 192 1e-047
dbj|BAB84519.2| (AB055214) single-subunit RNA polymerase [P... 191 2e-047
emb|CAC95163.1| (AJ416854) RNA polymerase [Physcomitrella p... 191 2e-047
emb|CAA69305.1| (Y08067) mitochondrial single-subunit DNA-d... 186 7e-046
emb|CAC95164.1| (AJ416855) RNA polymerase [Physcomitrella p... 186 9e-046
gb|AAK51466.1|AF361480_1 (AF361480) DNA-dependent RNA polym... 183 4e-045
dbj|BAB69431.1| (AB058956) T7 bacteriophage-type single sub... 180 5e-044
dbj|BAB69063.1| (AB058954) T7 bacteriophage-type single sub... 180 5e-044
gb|AAD22976.1|AF127021_1 (AF127021) T7-like RNA polymerase ... 180 5e-044
emb|CAA04491.1| (AJ001037) DNA-directed RNA polymerase [Ara... 178 1e-043
ref|NP_005026.2| (NM_005035) mitochondrial DNA-directed RNA... 171 2e-041
ref|NP_116617.1| (NC_001138) mitohcondrial RNA polymerase; ... 162 8e-039
sp|P06221|RPOL_BPSP6 DNA-DIRECTED RNA POLYMERASE >gi|15463|... 142 9e-033
dbj|BAB13497.1| (AB028633) RNA polymerase [Flammulina velut... 115 1e-024
ref|NP_049543.1| (NC_000843) RNA polymerase [Neurospora cra... 113 7e-024
pir||S17908 hypothetical protein 1 - Neurospora intermedia 104 3e-021
pir||T28421 probable DNA-directed RNA polymerase (EC 2.7.7.... 96 9e-019
gb|AAB64106.1| (AF005725) RNA polymerase [Ascosphaera aggre... 83 1e-014
gb|AAD11786.1| (AF096909) RNA polymerase [Agaricus subrutil... 66 1e-009
>ref|NP_570316.1| (NC_003390) RNA polymerase [Cyanophage P60]
gb|AAL73254.1| (AF338467) RNA polymerase [Cyanophage P60]
Length = 574
Score = 1159 bits (2998), Expect = 0.0
Identities = 562/574 (97%), Positives = 562/574 (97%)
Query: 82 MPRSQKCILRFSREFIGLRDALMQRALELSFCLWPMVCPPNDWTDEGRGGYLTEEIRGTA 141
MPRSQKCILRFSREFIGLRDALMQRALELSFCLWPMVCPPNDWTDEGRGGYLTEEIRGTA
Sbjct: 1 MPRSQKCILRFSREFIGLRDALMQRALELSFCLWPMVCPPNDWTDEGRGGYLTEEIRGTA 60
Query: 142 PMIRKVGKPIGDSKQGTIPVEFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFIHDQPR 201
PMIRKVGKPIGDSKQGTIPVEFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFIHDQPR
Sbjct: 61 PMIRKVGKPIGDSKQGTIPVEFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFIHDQPR 120
Query: 202 ERLDSFNGDPKAEPERFKEWKRMQRSIDDFNAQLFQRNWRATETMFVANQYDDEVFWIPW 261
ERLDSFNGDPKAEPERFKEWKRMQRSIDDFNAQLFQRNWRATETMFVANQYDDEVFWIPW
Sbjct: 121 ERLDSFNGDPKAEPERFKEWKRMQRSIDDFNAQLFQRNWRATETMFVANQYDDEVFWIPW 180
Query: 262 SFDYRGRVYPQNTQLNPQGTDFDKSLLLFAEEGEVDEYWLAWHVCTTYGNDKLSHNDRVA 321
SFDYRGRVYPQNTQLNPQGTDFDKSLLLFAEEGEVDEYWLAWHVCTTYGNDKLSHNDRVA
Sbjct: 181 SFDYRGRVYPQNTQLNPQGTDFDKSLLLFAEEGEVDEYWLAWHVCTTYGNDKLSHNDRVA 240
Query: 322 WTQENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQTSGLPIGIDAT 381
WTQENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQTSGLPIGIDAT
Sbjct: 241 WTQENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQTSGLPIGIDAT 300
Query: 382 CSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYIEDESIHPYMNRKITK 441
CSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYIEDESIHPYMNRKITK
Sbjct: 301 CSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYIEDESIHPYMNRKITK 360
Query: 442 RTVMTVPYGVSRDSARAYIREALHDAGFDLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMN 501
RTVMTVPYGVSRDSARAYIREALHDAGFDLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMN
Sbjct: 361 RTVMTVPYGVSRDSARAYIREALHDAGFDLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMN 420
Query: 502 WLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPD 561
WLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPD
Sbjct: 421 WLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPD 480
Query: 562 RQRHKGAIAPNLVHSLDASLLHLMFYEYDKPFTVIHDCILGRSCDMNEMMAGIHGXXXXX 621
RQRHKGAIAPNLVHSLDASLLHLMFYEYDKPFTVIHDCILGRSCDMNEMMAGIHG
Sbjct: 481 RQRHKGAIAPNLVHSLDASLLHLMFYEYDKPFTVIHDCILGRSCDMNEMMAGIHGLLLTN 540
Query: 622 XXXXXXXPSSLWRNVDSSAISCRRGSRISPLSVK 655
PSSLWRNVDSSAISCRRGSRISPLSVK
Sbjct: 541 EENAAALPSSLWRNVDSSAISCRRGSRISPLSVK 574
>ref|NP_177063.1| (NM_105571) DNA-directed RNA polymerase [Arabidopsis thaliana]
sp|P92969|RPOM_ARATH DNA-directed RNA polymerase, mitochondrial precursor
emb|CAA70583.1| (Y09432) mitochondrial singel subunit DNA-directed RNA polymerase
[Arabidopsis thaliana]
emb|CAA70210.1| (Y09006) mitochondrial single-subunit DNA-dependent RNA polymerase
[Arabidopsis thaliana]
gb|AAG51592.1|AC011665_13 (AC011665) DNA-directed RNA polymerase [Arabidopsis thaliana]
Length = 976
Score = 192 bits (487), Expect = 1e-047
Identities = 155/528 (29%), Positives = 251/528 (47%), Gaps = 45/528 (8%)
Query: 116 PMVCPPNDWT--DEGRGGYLTEEIRGT--APMIRKVGKPIGDSKQGTIPV-EFLNNLQRQ 170
PM+ PP +WT D+G +L + T A R V K K+ PV E L+ L
Sbjct: 406 PMLIPPQNWTGYDQGAHFFLPSYVMRTHGAKQQRTVMKRT--PKEQLEPVYEALDTLGNT 463
Query: 171 SYRINAAILAVANWCYDNSRTVGKFIHDQPRERLDSFNGDPKAEPERFKEWK-RMQRSID 229
++IN +L++ + + N +G + RE + + + E+FK W+ +++I
Sbjct: 464 KWKINKKVLSLVDRIWANGGRIGGLVD---REDVPIPEEPEREDQEKFKNWRWESKKAIK 520
Query: 230 DFNAQLFQRNWRATETMFVANQYDDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLLL 289
N + QR + D+E F+ P + D+RGR YP + LN G+D + +L
Sbjct: 521 QNNERHSQRCDIELKLEVARKMKDEEGFYYPHNVDFRGRAYPIHPYLNHLGSDLCRGILE 580
Query: 290 FAEE---GEVDEYWLAWHVCTTY--GNDKLSHNDRVAWTQENHELITIIAEDPIGAISLW 344
F E G+ WL H+ Y G DKL++ DR+A+T+ + E I ++ P+ W
Sbjct: 581 FCEGKPLGKSGLRWLKIHIANLYAGGVDKLAYEDRIAFTESHLEDIFDSSDRPLEGKRWW 640
Query: 345 EGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGIDATCSGLQHLSSMTRDAVAAKQVN 402
A +P+ LAACI + + + S +PI D +C+GLQH +++ RD + A VN
Sbjct: 641 LNAEDPFQCLAACINLSEALRSPFPEAAISHIPIHQDGSCNGLQHYAALGRDKLGADAVN 700
Query: 403 VIRGDQDGPSDGYKTVAEAAIKYI-----EDESIHP----------YMNRKITKRTVMTV 447
++ G++ P+D Y +A +K + ED P ++RK+ K+TVMT
Sbjct: 701 LVTGEK--PADVYTEIAARVLKIMQQDAEEDPETFPNATYAKLMLDQVDRKLVKQTVMTS 758
Query: 448 PYGVSRDSARAYIREALHDAGF--DLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMNWLQQ 505
YGV+ AR I++ L + G D S + KA+ E+F + +W
Sbjct: 759 VYGVTYSGARDQIKKRLKERGTFEDDSLTFHASCYAAKITLKALEEMFEAARAIKSWFGD 818
Query: 506 TAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPDRQRH 565
A ++ + + WTTP G VVQ RKP L+KTTL Q + ++ +R
Sbjct: 819 CA-KIIASENNAVCWTTPLGLPVVQPYRKPGRHLVKTTL----QVLTLSRETDKVMARRQ 873
Query: 566 KGAIAPNLVHSLDASLLHLMFYEYDK---PFTVIHDCILGRSCDMNEM 610
A APN +HSLD S + + ++ F +HD +CD++ M
Sbjct: 874 MTAFAPNFIHSLDGSHMMMTAVACNRAGLSFAGVHDSFWTHACDVDVM 921
>emb|CAA69331.1| (Y08137) mitochondrial single-subunit DNA-dependent RNA polymerase
[Arabidopsis thaliana]
Length = 976
Score = 192 bits (487), Expect = 1e-047
Identities = 156/528 (29%), Positives = 252/528 (47%), Gaps = 45/528 (8%)
Query: 116 PMVCPPNDWT--DEGRGGYLTEEIRGT--APMIRKVGKPIGDSKQGTIPV-EFLNNLQRQ 170
PM+ PP +WT D+G +L + T A R V K K+ PV E L+ L
Sbjct: 406 PMLIPPQNWTGYDQGAHFFLPSYVMRTHGAKQQRTVMKRT--PKEQLEPVYEALDTLGNT 463
Query: 171 SYRINAAILAVANWCYDNSRTVGKFIHDQPRERLDSFNGDPKAEPERFKEWK-RMQRSID 229
++IN +L++ + + N +G + RE + + + E+FK W+ +++I
Sbjct: 464 KWKINKKVLSLVDRIWANGGRIGGLVD---REDVPIPVEPEREDQEKFKNWRWESKKAIK 520
Query: 230 DFNAQLFQRNWRATETMFVANQYDDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLLL 289
N + QR + D+E F+ P + D+RGR YP + LN G+D + +L
Sbjct: 521 QNNERHSQRCDIELKLEVARKMKDEEGFYYPHNVDFRGRAYPIHPYLNHLGSDLCRGILE 580
Query: 290 FAEE---GEVDEYWLAWHVCTTY--GNDKLSHNDRVAWTQENHELITIIAEDPIGAISLW 344
F E G+ WL H+ Y G DKL++ DR+A+T+ + E I ++ P+ W
Sbjct: 581 FCEGKPLGKSGLRWLKIHIANLYAGGVDKLAYEDRIAFTESHLEDIFDSSDRPLEGKRWW 640
Query: 345 EGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGIDATCSGLQHLSSMTRDAVAAKQVN 402
A +P+ LAACI + + + S +PI D +C+GLQH +++ RD + A VN
Sbjct: 641 LNAEDPFQCLAACINLSEALRSPFPEAAISHIPIHQDGSCNGLQHYAALGRDKLGADAVN 700
Query: 403 VIRGDQDGPSDGYKTVAEAAIKYI-----EDESIHP----------YMNRKITKRTVMTV 447
++ G++ P+D Y +A +K + ED P ++RK+ K+TVMT
Sbjct: 701 LVTGEK--PADVYTEIAARVLKIMQQDAEEDPETFPNATYAKLMLDQVDRKLVKQTVMTS 758
Query: 448 PYGVSRDSARAYIREALHDAGF--DLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMNWLQQ 505
YGV+ SAR I++ L + G D S + KA+ E+F + +W
Sbjct: 759 VYGVTYSSARDQIKKRLKERGTFEDDSLTFHASCYAAKITLKALEEMFEAARAIKSWFGD 818
Query: 506 TAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPDRQRH 565
A ++ + + WTTP G VVQ RKP L+KTTL Q + ++ +R
Sbjct: 819 CA-KIIASENNAVCWTTPLGLPVVQPYRKPGRHLVKTTL----QVLTLSRETDKVMARRQ 873
Query: 566 KGAIAPNLVHSLDASLLHLMFYEYDK---PFTVIHDCILGRSCDMNEM 610
A APN +HSLD S + + ++ F +HD +CD++ M
Sbjct: 874 MTAFAPNFIHSLDGSHMMMTAVACNRAGLSFAGVHDSFWTHACDVDIM 921
>dbj|BAB84519.2| (AB055214) single-subunit RNA polymerase [Physcomitrella patens]
Length = 1087
Score = 191 bits (486), Expect = 2e-047
Identities = 154/529 (29%), Positives = 243/529 (45%), Gaps = 45/529 (8%)
Query: 116 PMVCPPNDWTDEGRGGYLTEEIRGTAPMIRKVGKPIGDSKQGTIP------VEFLNNLQR 169
PM+ P WT GGYL ++ T M K + D+ T+ V+ L+ L
Sbjct: 515 PMLVKPRAWTGFYDGGYL--HLKSTI-MRTHGAKELRDTIISTLRQDMIKIVQALDALGS 571
Query: 170 QSYRINAAILAVANWCYDNSRTVGKFIHDQPRERLDSFNGDPKAEPERFKEWKRMQRSID 229
++IN +L V + + + + + D D + E + W+R S
Sbjct: 572 TQWKINNVVLDVLEQMWKDGGRLADLVDAEDVPLPDKPESD---DFEEIRNWRRHTASAK 628
Query: 230 DFNAQLFQRNWRATETMFVANQY-DDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLL 288
N++ + A + D+E F+ P + D+RGR YP + LN G+D + +L
Sbjct: 629 RTNSERHSVRCDTELKLAAARKLRDEEGFFYPHNLDFRGRAYPIHPHLNHLGSDMCRGIL 688
Query: 289 LFAEE---GEVDEYWLAWHVCTTYGN--DKLSHNDRVAWTQENHELITIIAEDPIGAISL 343
FAE G WL H+ YG K+S + RVAW E E + A+ P+
Sbjct: 689 QFAEGRALGPTGLRWLKIHLANLYGGKVGKMSFDARVAWVDEVMEKVFDSADRPLDGSRW 748
Query: 344 WEGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGIDATCSGLQHLSSMTRDAVAAKQV 401
W A +P+ FLA C++ + +G +T S LP+ D +C+GLQH +++ RD + A+ V
Sbjct: 749 WLDAEDPFQFLATCLDIRNAIKSGNPETYVSHLPVHQDGSCNGLQHYAALGRDRIGAESV 808
Query: 402 NVIRGDQDGPSDGYKTVAEAAIKYIEDES---------------IHPYMNRKITKRTVMT 446
N++ GD+ P+D Y +A + +E ++ + P ++RK+ K+TVMT
Sbjct: 809 NLVAGDK--PADVYSGIAARVREIMERDAQKDPKTSRHAANAKLLLPEIDRKLVKQTVMT 866
Query: 447 VPYGVSRDSARAYIREALHDAGF--DLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMNWLQ 504
YGV+ AR I L + G + + R A+ E+F +M+WL
Sbjct: 867 SVYGVTFVGARMQIFNRLKERGTIQEQTEMYRAACYAAKTTLNALGEMFKEARCIMSWLG 926
Query: 505 QTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPDRQR 564
A ++ + E ++WTTP G VVQ RKP L+KT+L V +R D QR
Sbjct: 927 DCA-KIIASNGETVKWTTPLGLPVVQPYRKPGRHLVKTSL--QVLALRNLDADQPVLVQR 983
Query: 565 HKGAIAPNLVHSLDAS---LLHLMFYEYDKPFTVIHDCILGRSCDMNEM 610
K A PN VHSLD++ + L E F +HD + D+ +M
Sbjct: 984 QKSAFPPNFVHSLDSTHMMMTALACQEAGLTFAGVHDSYWTHAGDVEQM 1032
>emb|CAC95163.1| (AJ416854) RNA polymerase [Physcomitrella patens]
Length = 1087
Score = 191 bits (486), Expect = 2e-047
Identities = 154/529 (29%), Positives = 243/529 (45%), Gaps = 45/529 (8%)
Query: 116 PMVCPPNDWTDEGRGGYLTEEIRGTAPMIRKVGKPIGDSKQGTIP------VEFLNNLQR 169
PM+ P WT GGYL ++ T M K + D+ T+ V+ L+ L
Sbjct: 515 PMLVKPRAWTGFYDGGYL--HLKSTI-MRTHGAKELRDTIISTLRQDMIKIVQALDALGS 571
Query: 170 QSYRINAAILAVANWCYDNSRTVGKFIHDQPRERLDSFNGDPKAEPERFKEWKRMQRSID 229
++IN +L V + + + + + D D + E + W+R S
Sbjct: 572 TQWKINNVVLDVLEQVWKDGGRLADLVDAEDVPLPDKPESD---DFEEIRNWRRHTASAK 628
Query: 230 DFNAQLFQRNWRATETMFVANQY-DDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLL 288
N++ + A + D+E F+ P + D+RGR YP + LN G+D + +L
Sbjct: 629 RTNSERHSVRCDTELKLAAARKLRDEEGFFYPHNLDFRGRAYPIHPHLNHLGSDMCRGIL 688
Query: 289 LFAEE---GEVDEYWLAWHVCTTYGN--DKLSHNDRVAWTQENHELITIIAEDPIGAISL 343
FAE G WL H+ YG K+S + RVAW E E + A+ P+
Sbjct: 689 QFAEGRALGPTGLRWLKIHLANLYGGKVGKMSFDARVAWVDEVMEKVFDSADRPLDGSRW 748
Query: 344 WEGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGIDATCSGLQHLSSMTRDAVAAKQV 401
W A +P+ FLA C++ + +G +T S LP+ D +C+GLQH +++ RD + A+ V
Sbjct: 749 WLDAEDPFQFLATCLDIRNAIKSGNPETYVSHLPVHQDGSCNGLQHYAALGRDRIGAESV 808
Query: 402 NVIRGDQDGPSDGYKTVAEAAIKYIEDES---------------IHPYMNRKITKRTVMT 446
N++ GD+ P+D Y +A + +E ++ + P ++RK+ K+TVMT
Sbjct: 809 NLVAGDK--PADVYSGIAARVREIMERDAQKDPKTSRHAANAKLLLPEIDRKLVKQTVMT 866
Query: 447 VPYGVSRDSARAYIREALHDAGF--DLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMNWLQ 504
YGV+ AR I L + G + + R A+ E+F +M+WL
Sbjct: 867 SVYGVTFVGARMQIFNRLKERGTIQEQTEMYRAACYAAKTTLNALGEMFKEARCIMSWLG 926
Query: 505 QTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPDRQR 564
A ++ + E ++WTTP G VVQ RKP L+KT+L V +R D QR
Sbjct: 927 DCA-KIIASNGETVKWTTPLGLPVVQPYRKPGRHLVKTSL--QVLALRNLDADQPVLVQR 983
Query: 565 HKGAIAPNLVHSLDAS---LLHLMFYEYDKPFTVIHDCILGRSCDMNEM 610
K A PN VHSLD++ + L E F +HD + D+ +M
Sbjct: 984 QKSAFPPNFVHSLDSTHMMMTALACQEAGLTFAGVHDSYWTHAGDVEQM 1032
>emb|CAA69305.1| (Y08067) mitochondrial single-subunit DNA-dependent RNA polymerase
[Chenopodium album]
Length = 988
Score = 186 bits (472), Expect = 7e-046
Identities = 159/554 (28%), Positives = 256/554 (45%), Gaps = 61/554 (11%)
Query: 101 DALMQRALE-----LSFCLWPMVCPPNDWTDEGRGGYL--------TEEIRGTAPMIRKV 147
D L++R LE + PM+ PP +WT +G YL T ++ I++V
Sbjct: 397 DPLVRRGLEKTARHMVIPYMPMLIPPLNWTGYDKGAYLYLPSYIMRTHGVKQQRDAIKRV 456
Query: 148 GKPIGDSKQGTIPVEFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFI--HDQPRERLD 205
+ D+ T+ E L+ L +R+N +L++ + + + + + D P
Sbjct: 457 AR---DNNLCTV-FEALDTLGNTKWRVNKKVLSIIDRIWASGGCLADLVDREDMP----- 507
Query: 206 SFNGDPKAEP-ERFKEWKRMQRSIDDFNAQLFQRNWRATETMFVANQY-DDEVFWIPWSF 263
G+P + E K+WK + + NA+ + + VA + D+E F+ P +
Sbjct: 508 -LPGEPDTDDAEEIKKWKWKVKHVKKDNAERHSQRCDTELKLAVARKMKDEEGFYYPHNL 566
Query: 264 DYRGRVYPQNTQLNPQGTDFDKSLLLFAEE---GEVDEYWLAWHVCTTY--GNDKLSHND 318
D+RGR YP + LN G+D + +L FAE G+ WL HV Y G DKLS+
Sbjct: 567 DFRGRAYPMHPHLNHLGSDLCRGILEFAEGRPLGKSGLNWLKVHVANLYAGGVDKLSYEG 626
Query: 319 RVAWTQENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQ--TSGLPI 376
RVA+T+ + + A+ P+ W A +P+ LAACI + + + + S +PI
Sbjct: 627 RVAFTENRLDDVFDSADRPLEGRRWWLTAEDPFQCLAACINLTDALRSSSPEDYLSHIPI 686
Query: 377 GIDATCSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYI-----EDESI 431
D +C+GLQH +++ RD + A+ VN++ G + P+D Y +A + + +D SI
Sbjct: 687 HQDGSCNGLQHYAALGRDKLGAEAVNLVAGGK--PADVYSGIAARVFEIMRGDAEKDPSI 744
Query: 432 HP----------YMNRKITKRTVMTVPYGVSRDSARAYIREAL--HDAGFDLSTKGRLGQ 479
P ++RK+ K+TVMT YGV+ R I+ L DA D +
Sbjct: 745 EPNAFHAKLLLNQVDRKLVKQTVMTSVYGVTYIGVRDQIKRRLKERDAIVDDNDLFAASC 804
Query: 480 VTDAVYRKAVPEVFAGPVDVMNWLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKL 539
A+ E+F +M WL A ++ + + W+TP G VVQ R +L
Sbjct: 805 YAAKTTMTALEEMFEAARSIMGWLGDCA-KIIASENQPARWSTPLGLPVVQPYRNHGRRL 863
Query: 540 IKTTLMGSVQQIRVADGFAGPDRQRHKGAIAPNLVHSLDASLLHLMFYEYDKP---FTVI 596
+KT+L V +R RQR A PN VHSLD S + + K F +
Sbjct: 864 VKTSL--QVLTLRCDTDKVMAKRQR--TAFPPNFVHSLDGSHMMMTAIACKKAGMNFAGV 919
Query: 597 HDCILGRSCDMNEM 610
HD +CD+++M
Sbjct: 920 HDSYWTHACDVDKM 933
>emb|CAC95164.1| (AJ416855) RNA polymerase [Physcomitrella patens]
Length = 1065
Score = 186 bits (471), Expect = 9e-046
Identities = 153/530 (28%), Positives = 239/530 (44%), Gaps = 46/530 (8%)
Query: 116 PMVCPPNDWTDEGRGGYL---TEEIRGTAPMIRKVGKPIGDSKQGTIPVEFLNNLQRQSY 172
PM+ P W GGYL + +R +++ K + VE LN L +
Sbjct: 492 PMLVKPLPWKGFNEGGYLYLKSSIMRTQGAKEQRMAVIDTPRKHMKVVVEALNVLGETGW 551
Query: 173 RINAAILAVANWCYDNSRTVGKFIH--DQP-RERLDSFNGDPKAEPERFKEWKRMQRSID 229
R+N +L V + + + D P ER D+ ++ E + +WK
Sbjct: 552 RVNKRVLEVVEKLWKAGGGIADLVEADDVPIPERPDT------SDKEVWHKWKVAVSQAK 605
Query: 230 DFNAQLFQRNWRATETMFVANQY-DDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLL 288
N++ + VA++ D+E F+ P + D+RGR YP + LN G D + LL
Sbjct: 606 RTNSERHSLRCDTELKLGVADKLIDEEAFYYPHNLDFRGRAYPMHPHLNHLGNDLCRGLL 665
Query: 289 LFAEE---GEVDEYWLAWHVCTTYGND--KLSHNDRVAWTQENHELITIIAEDPIGAISL 343
+FA+ G W+ + YG K+S +DR A+ ++ E I AE P+ L
Sbjct: 666 IFADGKPLGPSGLRWIKIQLANLYGGSVGKMSFDDRAAFAEDRMEEILDSAERPLDGSRL 725
Query: 344 WEGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGIDATCSGLQHLSSMTRDAVAAKQV 401
W A +P+ FLAACI+ + +G +T S LP+ D +C+GLQH +++ RD + A+ V
Sbjct: 726 WLKAEDPFQFLAACIDLRDALASGNPETFVSHLPVHQDGSCNGLQHYAALGRDRIGAESV 785
Query: 402 NVIRGDQDGPSDGYKTVAEAAIKYIEDES---------------IHPYMNRKITKRTVMT 446
N+I GD+ P+D Y +AE +E ++ + ++RK+ K+TVMT
Sbjct: 786 NLIAGDK--PADVYSGIAERVEIIMEKDALKNPLTSRNAASARLLQGQIDRKLVKQTVMT 843
Query: 447 VPYGVSRDSARAYIREALHD---AGFDLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMNWL 503
YGV+ AR I L + D R V A+ E+F +M+WL
Sbjct: 844 SVYGVTFIGARMQILNRLKERSPIAVDPVDTYRAACYAAKVTLDALGEMFKEARCIMSWL 903
Query: 504 QQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPDRQ 563
A ++ A + WT+P G +VQ RK L+KT+L V +R D
Sbjct: 904 GDCA-KIIAAAGHTVRWTSPLGLPIVQPYRKHSRHLVKTSL--QVLALRNTDDNHPVLAS 960
Query: 564 RHKGAIAPNLVHSLDASLLHLMFYEYDK---PFTVIHDCILGRSCDMNEM 610
R + A PN VHSLD+S + + K F +HD + D+ M
Sbjct: 961 RQRSAFPPNFVHSLDSSHMMMTALACSKAGLTFAGVHDSYWTHAGDVENM 1010
>gb|AAK51466.1|AF361480_1 (AF361480) DNA-dependent RNA polymerase RpmA [Dictyostelium
discoideum]
gb|AAK73754.1| (AY040092) T3/T7 bacteriophage-like mitochondrial RNA polymerase
[Dictyostelium discoideum]
Length = 950
Score = 183 bits (465), Expect = 4e-045
Identities = 148/511 (28%), Positives = 229/511 (43%), Gaps = 37/511 (7%)
Query: 114 LWPMVCPPNDWTDEGRGGYLTEEIRGTAPMIRKVG-----KPIGDSKQGTIPVEFLNNLQ 168
L+PMV P W G YL ++ P++R G + + DS I LN L
Sbjct: 384 LFPMVIKPLPWITPTEGPYLHYKV----PIMRTNGSAMQLRTLVDSDMSLI-YRALNILG 438
Query: 169 RQSYRINAAILAVANWCYDNSRTVGKFIHDQPRERLDSFNGDPKAEPERFKEWKRMQRSI 228
+ IN + V + N +G I + + D + E KE + ++ I
Sbjct: 439 ETPWVINRDLYNVILEAWANGGNIGD-IPKRTDFEYPEISDDMLFDHEARKELYKKEQRI 497
Query: 229 DDFNAQLFQRNWRATETMFVANQYDDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLL 288
N L + VA ++ D + P + D+RGR YP LN G+DF +SLL
Sbjct: 498 KSLNFNLHSLRCDTNYKLEVARKFLDHTLYFPHNIDFRGRSYPIPPHLNHLGSDFCRSLL 557
Query: 289 LFAEE---GEVDEYWLAWHVCTTYGNDKLSHNDRVAWTQENHELITIIAEDPIGAISLWE 345
F + GE WL HV YG DK+ N+R+A+T+ N E I + P+ W
Sbjct: 558 KFEKSLPLGEKGLEWLKIHVANLYGVDKIPLNERLAFTERNMENIFDSVDSPLNGNKWWL 617
Query: 346 GAGEPWMFLAACIEYHACVITG--AKQTSGLPIGIDATCSGLQHLSSMTRDAVAAKQVNV 403
A PW LAAC+E + +G A+ S LPI D TC+GLQH +++ D A++VN+
Sbjct: 618 KADNPWQTLAACMELTKAIRSGKPAEFLSNLPIHQDGTCNGLQHYAALGGDVWGAEKVNL 677
Query: 404 IRGDQDGPSDGYKTVAEAAIKYIEDESIH---------PYMNRKITKRTVMTVPYGVSRD 454
+ D P D Y +VA+ + +E+++ + ++RK+ K+TVMT YGV+
Sbjct: 678 L--PSDCPQDVYSSVAQLVEQIVEEDAKNGDEIAQFFLGKVDRKLVKQTVMTSVYGVTYI 735
Query: 455 SARAYIREALHDAGFDLSTKGRLGQVTDAVYRK----AVPEVFAGPVDVMNWLQQTAMDL 510
AR I A+ + DL + K ++ +F G +M W+ A L
Sbjct: 736 GAREQIENAILEKFSDLDLDEDFIFKSSTYITKNTFASLNNMFVGARSIMKWMSDCA-TL 794
Query: 511 LDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPDRQRHKGAIA 570
+ + W TP G VVQ +K I+T + + D D R + A
Sbjct: 795 IAKSGHCVTWNTPLGLPVVQPYKKGGKYNIRTLECDFI--VVHNDDLLQVDSNRQRSAFP 852
Query: 571 PNLVHSLDAS---LLHLMFYEYDKPFTVIHD 598
PN +HSLD++ L + Y+ ++ +HD
Sbjct: 853 PNFIHSLDSTHMFLTAMTCYDQGITYSSVHD 883
>dbj|BAB69431.1| (AB058956) T7 bacteriophage-type single subunit RNA polymerase
[Nicotiana sylvestris]
Length = 1002
Score = 180 bits (456), Expect = 5e-044
Identities = 157/553 (28%), Positives = 246/553 (44%), Gaps = 61/553 (11%)
Query: 99 LRDALMQRALELSFCLWPMVCPPNDWTDEGRGGYL--------TEEIRGTAPMIRKVGKP 150
+R L + A + PM+ PP W +G YL T + +++V K
Sbjct: 415 VRKGLDKTARHMVIPYMPMLVPPQSWLGYDKGAYLFLPSYIMRTHGAKQQREAVKRVPK- 473
Query: 151 IGDSKQGTIPVEFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFI--HDQPRERLDSFN 208
KQ + L+ L +R+N +L + + + + + + D P
Sbjct: 474 ----KQLEPVFQALDTLGNTKWRLNRKVLGIVDRIWASGGRLADLVDREDVPLPE----- 524
Query: 209 GDPKAEPE-RFKEWKRMQRSIDDFNAQLFQRNWRATETMFVANQYDDEV-FWIPWSFDYR 266
+P AE E + ++WK + + N + + + VA + DE F+ P + D+R
Sbjct: 525 -EPDAEDEAQIRKWKWKVKGVKKENCERHSQRCDIELKLAVARKMKDEDGFYYPHNLDFR 583
Query: 267 GRVYPQNTQLNPQGTDFDKSLLLFAEE---GEVDEYWLAWHVCTTYGN--DKLSHNDRVA 321
GR YP + LN G+D + +L FAE G+ WL H+ YG DKLS+ RVA
Sbjct: 584 GRAYPMHPYLNHLGSDLCRGILEFAEGRPLGKSGLRWLKIHLANVYGGGVDKLSYEGRVA 643
Query: 322 WTQENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGID 379
+++ + E I AE P+ W GA +P+ LA CI + + + +T S +PI D
Sbjct: 644 FSENHVEDIFDSAERPLEGKRWWLGAEDPFQCLATCINIAEALRSPSPETAISYMPIHQD 703
Query: 380 ATCSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYIEDESIHPYMN--- 436
+C+GLQH +++ RD + A VN++ GD+ P+D Y +A + ++ ++ N
Sbjct: 704 GSCNGLQHYAALGRDTLGAAAVNLVAGDK--PADVYSGIAARVLDIMKRDAAKDPANDPN 761
Query: 437 ------------RKITKRTVMTVPYGVSRDSARAYIREALHDAGFDLSTKGRLGQVTDAV 484
RK+ K+TVMT YGV+ AR I+ L + G A
Sbjct: 762 VMRARLLINQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERGVIEDDNELFAAACYAA 821
Query: 485 YR--KAVPEVFAGPVDVMNWLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKT 542
A+ E+F +M+WL A ++ + WTTP G VVQ RK LIKT
Sbjct: 822 KTTLTALGEMFEAARSIMSWLGDCA-KIIAMENHPVRWTTPLGLPVVQPYRKLGRHLIKT 880
Query: 543 TLMGSVQQIRVADGFAGPDRQRHKGAIAPNLVHSLDASLLHLMF-----YEYDKPFTVIH 597
+L Q R D +R + A PN VHSLD S H+M E F +H
Sbjct: 881 SLQILTLQ-RETDKVM---VKRQRTAFPPNFVHSLDGS--HMMMTAIACKESGLSFAGVH 934
Query: 598 DCILGRSCDMNEM 610
D + D+++M
Sbjct: 935 DSYWTHASDVDQM 947
>dbj|BAB69063.1| (AB058954) T7 bacteriophage-type single subunit RNA polymerase
[Nicotiana sylvestris]
Length = 1002
Score = 180 bits (456), Expect = 5e-044
Identities = 157/553 (28%), Positives = 246/553 (44%), Gaps = 61/553 (11%)
Query: 99 LRDALMQRALELSFCLWPMVCPPNDWTDEGRGGYL--------TEEIRGTAPMIRKVGKP 150
+R L + A + PM+ PP W +G YL T + +++V K
Sbjct: 415 VRKGLDKTARHMVIPYMPMLVPPQSWLGYDKGAYLFLPSYIMRTHGAKQQREAVKRVPK- 473
Query: 151 IGDSKQGTIPVEFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFI--HDQPRERLDSFN 208
KQ + L+ L +R+N +L + + + + + + D P
Sbjct: 474 ----KQLEPVFQALDTLGNTKWRLNRKVLGIVDRIWASGGRLADLVDREDVPLPE----- 524
Query: 209 GDPKAEPE-RFKEWKRMQRSIDDFNAQLFQRNWRATETMFVANQYDDEV-FWIPWSFDYR 266
+P AE E + ++WK + + N + + + VA + DE F+ P + D+R
Sbjct: 525 -EPDAEDEAQIRKWKWKVKGVKKENCERHSQRCDIELKLAVARKMKDEDGFYYPHNLDFR 583
Query: 267 GRVYPQNTQLNPQGTDFDKSLLLFAEE---GEVDEYWLAWHVCTTYGN--DKLSHNDRVA 321
GR YP + LN G+D + +L FAE G+ WL H+ YG DKLS+ RVA
Sbjct: 584 GRAYPMHPYLNHLGSDLCRGILEFAEGRPLGKSGLRWLKIHLANVYGGGVDKLSYEGRVA 643
Query: 322 WTQENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGID 379
+++ + E I AE P+ W GA +P+ LA CI + + + +T S +PI D
Sbjct: 644 FSENHVEDIFDSAERPLEGKRWWLGAEDPFQCLATCINIAEALRSPSPETAISYMPIHQD 703
Query: 380 ATCSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYIEDESIHPYMN--- 436
+C+GLQH +++ RD + A VN++ GD+ P+D Y +A + ++ ++ N
Sbjct: 704 GSCNGLQHYAALGRDTLGAAAVNLVAGDK--PADVYSGIAARVLDIMKRDAAKDPANDPN 761
Query: 437 ------------RKITKRTVMTVPYGVSRDSARAYIREALHDAGFDLSTKGRLGQVTDAV 484
RK+ K+TVMT YGV+ AR I+ L + G A
Sbjct: 762 VMRARLLINQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERGVIEDDNELFAAACYAA 821
Query: 485 YR--KAVPEVFAGPVDVMNWLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKT 542
A+ E+F +M+WL A ++ + WTTP G VVQ RK LIKT
Sbjct: 822 KTTLTALGEMFEAARSIMSWLGDCA-KIIAMENHPVRWTTPLGLPVVQPYRKLGRHLIKT 880
Query: 543 TLMGSVQQIRVADGFAGPDRQRHKGAIAPNLVHSLDASLLHLMF-----YEYDKPFTVIH 597
+L Q R D +R + A PN VHSLD S H+M E F +H
Sbjct: 881 SLQILTLQ-RETDKVM---VKRQRTAFPPNFVHSLDGS--HMMMTAIACKESGLSFAGVH 934
Query: 598 DCILGRSCDMNEM 610
D + D+++M
Sbjct: 935 DSYWTHASDVDQM 947
>gb|AAD22976.1|AF127021_1 (AF127021) T7-like RNA polymerase [Zea mays]
Length = 975
Score = 180 bits (456), Expect = 5e-044
Identities = 159/552 (28%), Positives = 251/552 (44%), Gaps = 59/552 (10%)
Query: 99 LRDALMQRALELSFCLWPMVCPPNDWTDEGRGGYL--------TEEIRGTAPMIRKVGKP 150
+R L + A + PM+ PP WT +G +L T R +++ +
Sbjct: 388 VRQGLDRTAKHMVIPYMPMLIPPICWTGYDKGAHLFLPSYVMRTHGARQQRDAVKRAPR- 446
Query: 151 IGDSKQGTIPVEFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFIHDQPRERLD-SFNG 209
+Q E LN L +R+N +L++ + + N + + +R D
Sbjct: 447 ----EQMQFVFEALNTLGSTKWRVNKRVLSIVDRIWSNGGRLADLV-----DRTDVPVPE 497
Query: 210 DPKAEPERF-KEWKRMQRSIDDFNAQLFQRNWRATETMFVANQY-DDEVFWIPWSFDYRG 267
P E E K WK R+ N++ + + VA + D+E F+ P + D+RG
Sbjct: 498 KPDTEDETLLKNWKWHLRAAKKKNSERHSQRCDVELKLAVARKMKDEEGFYYPHNLDFRG 557
Query: 268 RVYPQNTQLNPQGTDFDKSLLLFAEE---GEVDEYWLAWHVCTTY--GNDKLSHNDRVAW 322
R YP + LN G+D + +L FAE G+ WL H+ Y G DKLS++ R+A+
Sbjct: 558 RAYPMHPYLNHLGSDLCRGVLEFAEGRPLGKSGLRWLKIHLANLYAAGVDKLSYDGRIAF 617
Query: 323 TQENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGIDA 380
+ + E I A+ P+ GA +P+ LA C+ + + + +T S +P+ D
Sbjct: 618 AENHLEEIFDSADRPLEGRRWRLGAEDPFQCLAVCMNLTEALRSSSPETTISHIPVHQDG 677
Query: 381 TCSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYI-----EDESIHP-- 433
+C+GLQH +++ +D + A VN++ G++ P+D Y +A ++ + +D S+ P
Sbjct: 678 SCNGLQHYAALGKDKLGAIAVNLVAGEK--PADVYTGIANRVMEIMRMDAQKDPSVEPDA 735
Query: 434 --------YMNRKITKRTVMTVPYGVSRDSARAYIREALHDAGFDLSTKGRLGQVTDA-- 483
++RK+ K+TVMT YGV+ AR IR L + G + G A
Sbjct: 736 ARARLIVDQVDRKLVKQTVMTSVYGVTYIGAREQIRRRLKERGVIPNDSELFGASCYAAK 795
Query: 484 VYRKAVPEVFAGPVDVMNWLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTT 543
V A+ E+F +MNWL A ++ E + WTTP G VVQ RK LIKT+
Sbjct: 796 VTLTALGEMFQAARSIMNWLGDCA-KVIACENEPVRWTTPLGLPVVQPYRKLGRHLIKTS 854
Query: 544 LMGSVQQIRVADGFAGPDRQRHKGAIAPNLVHSLDASLLHLMF-----YEYDKPFTVIHD 598
L Q R D +R K A PN VHSLD S H+M F +HD
Sbjct: 855 LQVLTLQ-RETDKVM---VKRQKTAFPPNFVHSLDGS--HMMMTAVACKRQGLNFAGVHD 908
Query: 599 CILGRSCDMNEM 610
+ D++ M
Sbjct: 909 SYWTHASDVDTM 920
>emb|CAA04491.1| (AJ001037) DNA-directed RNA polymerase [Arabidopsis thaliana]
Length = 1011
Score = 178 bits (452), Expect = 1e-043
Identities = 156/549 (28%), Positives = 254/549 (45%), Gaps = 52/549 (9%)
Query: 101 DALMQRALELS-----FCLWPMVCPPNDWTDEGRGGYL--TEEIRGTAPMIRKVGKPIGD 153
D L+++ LE S PM+ PP W+ +G YL T I T ++ + +
Sbjct: 421 DPLVRKGLEKSGRYAVMPYMPMLVPPLKWSGYDKGAYLFLTSYIMRTHGA-KQQREALKS 479
Query: 154 SKQGTI-PV-EFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFIHDQPRERLD-SFNGD 210
+ +G + PV E L+ L +R+N +L V + + + V + +R D
Sbjct: 480 APKGQLQPVFEALDTLGSTKWRVNKRVLTVVDRIWSSGGCVADMV-----DRSDVPLPEK 534
Query: 211 PKAEPERF-KEWKRMQRSIDDFNAQLFQRNWRATETMFVANQY-DDEVFWIPWSFDYRGR 268
P E E K+WK +S N++ + + VA + D+E F+ P + D+RGR
Sbjct: 535 PDTEDEGILKKWKWEVKSAKKVNSERHSQRCDTELKLSVARKMKDEEAFYYPHNMDFRGR 594
Query: 269 VYPQNTQLNPQGTDFDKSLLLFAE---EGEVDEYWLAWHVCTTY--GNDKLSHNDRVAWT 323
YP LN G+D + +L FAE G WL H+ Y G DKLS + R+A+T
Sbjct: 595 AYPMPPHLNHLGSDLCRGVLEFAEGRPMGISGLRWLKIHLANLYAGGVDKLSLDGRLAFT 654
Query: 324 QENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQT--SGLPIGIDAT 381
+ + + I A+ P+ W A +P+ LA CI + + + +T S +PI D +
Sbjct: 655 ENHLDDIFDSADRPLEGSRWWLQAEDPFQCLAVCISLTEALRSPSPETVLSHIPIHQDGS 714
Query: 382 CSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYI-----EDESIHP--- 433
C+GLQH +++ RD + A+ VN++ G++ P+D Y +A + + D + P
Sbjct: 715 CNGLQHYAALGRDTLGAEAVNLVAGEK--PADVYSEIATRVLDIMRRDADRDPEVFPEAL 772
Query: 434 -------YMNRKITKRTVMTVPYGVSRDSARAYIREALHDAGFDLSTKGRLGQVTDA--V 484
++RK+ K+TVMT YGV+ AR I+ L + K G A V
Sbjct: 773 RARKLLNQVDRKLVKQTVMTSVYGVTYIGARDQIKRRLKERSDFGDEKEVFGAACYAAKV 832
Query: 485 YRKAVPEVFAGPVDVMNWLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTL 544
A+ E+F +M W + A ++ + E + WTTP G VVQ + TKL+KT+L
Sbjct: 833 TLAAIDEMFQAARAIMRWFGECA-KIIASENETVRWTTPLGLPVVQPYHQMGTKLVKTSL 891
Query: 545 MGSVQQIRVADGFAGPDRQRHKGAIAPNLVHSLDASLLHLMFYEYDKP---FTVIHDCIL 601
Q +R + A PN +HSLD S + + + F +HD
Sbjct: 892 QTLSLQHETDQVIV----RRQRTAFPPNFIHSLDGSHMMMTAVACKRAGVCFAGVHDSFW 947
Query: 602 GRSCDMNEM 610
+CD++++
Sbjct: 948 THACDVDKL 956
>ref|NP_005026.2| (NM_005035) mitochondrial DNA-directed RNA polymerase precursor [Homo
sapiens]
Length = 1230
Score = 171 bits (433), Expect = 2e-041
Identities = 146/529 (27%), Positives = 229/529 (42%), Gaps = 46/529 (8%)
Query: 116 PMVCPPNDWTDEGRGGYLTEEIRGTAPMIRKV-GKPIGDSKQGTIP-------VEFLNNL 167
PM+CPP WT G +L + ++R V G T P ++ L L
Sbjct: 647 PMLCPPLPWTSPHSGAFLLSPTK----LMRTVEGATQHQELLETCPPTALHGALDALTQL 702
Query: 168 QRQSYRINAAILAV------ANWCYDNSRTVGKFIHDQPRERLDSFNGDPKAEPERFKEW 221
++R+N +L + A C QP E + P + E +E
Sbjct: 703 GNCAWRVNGRVLDLVLQLFQAKGCPQLGVPAPPSEAPQPPEAHLPHSAAPARKAELRREL 762
Query: 222 KRMQRSIDDFNAQLFQRNWRATETMFVANQYDDEVFWIPWSFDYRGRVYPQNTQLNPQGT 281
Q+ + ++ + +R + +A D VFW+P + D+RGR YP N G+
Sbjct: 763 AHCQKVAREMHSLRAEALYRLS----LAQHLRDRVFWLPHNMDFRGRTYPCPPHFNHLGS 818
Query: 282 DFDKSLLLFAEEGEVDEY---WLAWHVCTTYGNDKLSH-NDRVAWTQENHELITIIAEDP 337
D ++LL FA+ + + WL H+ G K R+A+ +E + I A+ P
Sbjct: 819 DVARALLEFAQGRPLGPHGLDWLKIHLVNLTGLKKREPLRKRLAFAEEVMDDILDSADQP 878
Query: 338 IGAISLWEGAGEPWMFLAACIEYHACVITG--AKQTSGLPIGIDATCSGLQHLSSMTRDA 395
+ W GA EPW LA C+E V A S LP+ D +C+GLQH +++ RD+
Sbjct: 879 LTGRKWWMGAEEPWQTLACCMEVANAVRASDPAAYVSHLPVHQDGSCNGLQHYAALGRDS 938
Query: 396 VAAKQVNVIRGDQDGPSDGYKTVAEAAIKYIEDES---------IHPYMNRKITKRTVMT 446
V A VN+ D P D Y VA + ++ + ++ RK+ K+TVMT
Sbjct: 939 VGAASVNL--EPSDVPQDVYSGVAAQVEVFRRQDAQRGMRVAQVLEGFITRKVVKQTVMT 996
Query: 447 VPYGVSRDSARAYIREALHD-AGFDLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMNWLQQ 505
V YGV+R R I + L + + F K++ E+F+G + +WL +
Sbjct: 997 VVYGVTRYGGRLQIEKRLRELSDFPQEFVWEASHYLVRQVFKSLQEMFSGTRAIQHWLTE 1056
Query: 506 TAMDLLDAGAEQIEWTTPSGFRVVQDIR-KPRTKLIKTTLMGSVQQIRVADGFAGPDRQR 564
+A L+ +EW TP G V+Q R + K I + S+ D P+ ++
Sbjct: 1057 SAR-LISHMGSVVEWVTPLGVPVIQPYRLDSKVKQIGGGIQ-SITYTHNGDISRKPNTRK 1114
Query: 565 HKGAIAPNLVHSLDAS---LLHLMFYEYDKPFTVIHDCILGRSCDMNEM 610
K PN +HSLD+S L L Y F +HDC + D++ M
Sbjct: 1115 QKNGFPPNFIHSLDSSHMMLTALHCYRKGLTFVSVHDCYWTHAADVSVM 1163
>ref|NP_116617.1| (NC_001138) mitohcondrial RNA polymerase; Rpo41p [Saccharomyces
cerevisiae]
pir||S56218 DNA-directed RNA polymerase (EC 2.7.7.6), mitochondrial - yeast
(Saccharomyces cerevisiae)
dbj|BAA09203.1| (D50617) mithochondrial DNA-directed RNA polymerase [Saccharomyces
cerevisiae]
prf||2210408E RNA polymerase [Saccharomyces cerevisiae]
Length = 1351
Score = 162 bits (411), Expect = 8e-039
Identities = 147/540 (27%), Positives = 233/540 (42%), Gaps = 53/540 (9%)
Query: 114 LWPMVCPPNDWTDEGRGGY--LTEEIRGTAPMIRKVGKPIGDSKQGTIPVEF--LNNLQR 169
L PM+ P W + GGY + T +V S G I + LN L R
Sbjct: 672 LLPMLVEPKPWVNWRSGGYHYTQSTLLRTKDSPEQVAYLKAASDNGDIDRVYDGLNVLGR 731
Query: 170 QSYRINAAILAVANWCYDNSRTVGKFIHDQP--RERLDSFNGDPK-AEPERFKEWKRMQR 226
+ +N + V + ++ G+ D P ++ + PK ++P + WK +
Sbjct: 732 TPWTVNRKVFDVVSQVWNK----GEGFLDIPGAQDEMVLPPAPPKNSDPSILRAWKLQVK 787
Query: 227 SIDDFNAQLFQRNWRATETMFVANQYDDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKS 286
+I + + + +A + E + P + D+RGR YP + N G D +
Sbjct: 788 TIANKFSSDRSNRCDTNYKLEIARAFLGEKLYFPHNLDFRGRAYPLSPHFNHLGNDMSRG 847
Query: 287 LLLF---AEEGEVDEYWLAWHVCTTYGNDKLSHNDRVAWTQENHELITIIAEDPIGAISL 343
LL+F + G WL H+ +G DKL DRVA+T+ + + I AE+P+
Sbjct: 848 LLIFWHGKKLGPSGLKWLKIHLSNLFGFDKLPLKDRVAFTESHLQDIKDSAENPLTGDRW 907
Query: 344 WEGAGEPWMFLAACIEYHACVITGAKQ--TSGLPIGIDATCSGLQHLSSMTRDAVAAKQV 401
W A +PW LA C E + + + S P+ D TC+GLQH +++ D A QV
Sbjct: 908 WTTADKPWQALATCFELNEVMKMDNPEEFISHQPVHQDGTCNGLQHYAALGGDVEGATQV 967
Query: 402 NVIRGDQDGPSDGYKTVAEAAIKYIE------DES---IHPYMNRKITKRTVMTVPYGVS 452
N++ D+ P D Y VA K +E DE+ + + RK+ K+TVMT YGV+
Sbjct: 968 NLVPSDK--PQDVYAHVARLVQKRLEIAAEKGDENAKILKDKITRKVVKQTVMTNVYGVT 1025
Query: 453 RDSARAYIREALHDAGFDLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMNWLQQTAMDL-- 510
A I + L D + A+ E+F + +WL ++A +
Sbjct: 1026 YVGATFQIAKQLSPIFDDRKESLDFSKYLTKHVFSAIRELFHSAHLIQDWLGESAKRISK 1085
Query: 511 ---LDAGAEQIE------------WTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVAD 555
LD + + WTTP G +VQ R+ K ++T L Q + ++D
Sbjct: 1086 SIRLDVDEKSFKNGNKPDFMSSVIWTTPLGLPIVQPYREESKKQVETNL----QTVFISD 1141
Query: 556 GFA--GPDRQRHKGAIAPNLVHSLDASLLHLMFYEYDK---PFTVIHDCILGRSCDMNEM 610
FA + +R K + PN +HSLDAS + L E K F +HD + D++ M
Sbjct: 1142 PFAVNPVNARRQKAGLPPNFIHSLDASHMLLSAAECGKQGLDFASVHDSYWTHASDIDTM 1201
>sp|P06221|RPOL_BPSP6 DNA-DIRECTED RNA POLYMERASE
emb|CAA68288.1| (Y00105) RNA polymerase (AA 1-874) [Enterobacteria phage SP6]
Length = 874
Score = 142 bits (359), Expect = 9e-033
Identities = 171/687 (24%), Positives = 275/687 (39%), Gaps = 106/687 (15%)
Query: 8 QWYQQQDKDLFRNVTNGFHHSTGTRQKATVYNLRFNKAGIQWKGWGRTVHFKVGSWALRS 67
+++++ K L + T + H+ A + +W+ W + ++G+ L
Sbjct: 130 KYFEKVKKSLKASRTKSYRHAHNVAVVAEKSVAEKDADFDRWEAWPKETQLQIGT-TLLE 188
Query: 68 ITETTGWIIKETIKMPRSQ----KCI--LRFSREFIGLRDALMQRALELSFCLWPMVCPP 121
I E + + E + M + K I L+ S A + +LS P V PP
Sbjct: 189 ILEGSVFYNGEPVFMRAMRTYGGKTIYYLQTSESVGQWISAFKEHVAQLSPAYAPCVIPP 248
Query: 122 NDWTDEGRGGYLTEEIRGTAPMIRKVGKPIGDSKQGTIPVEF--LNNLQRQSYRINAAIL 179
W GG+ TE++ +++ + + Q +P + +N LQ ++IN +L
Sbjct: 249 RPWRTPFNGGFHTEKVASRIRLVKGNREHVRKLTQKQMPKVYKAINALQNTQWQINKDVL 308
Query: 180 AVANWCYDNSRTVG--------------------KFIHDQPRERLDSFNGDPKAEPERFK 219
AV G +F H + RE + + + + ++F
Sbjct: 309 AVIEEVIRLDLGYGVPSFKPLIDKENKPANPVPVEFQHLRGRELKEMLSPE---QWQQFI 365
Query: 220 EWKRMQRSIDDFNAQLFQRNWRATETMFVANQYDD-EVFWIPWSFDYRGRVYPQNTQLNP 278
WK + + ++ + A +Y E + ++ D R RVY Q++ L+P
Sbjct: 366 NWKGECARLYTAETKRGSKSAAVVRMVGQARKYSAFESIYFVYAMDSRSRVYVQSSTLSP 425
Query: 279 QGTDFDKSLLLFAEEGEVDEY----WLAWHVCTTYGNDKLSHNDRVA--WTQENHELITI 332
Q D K+LL F E V+ W + +G DK + + RV+ +E ++
Sbjct: 426 QSNDLGKALLRFTEGRPVNGVEALKWFCINGANLWGWDKKTFDVRVSNVLDEEFQDMCRD 485
Query: 333 IAEDPIGAISLWEGAGEPWMFLAACIEYHA---CVITGAKQT--SGLPIGIDATCSGLQH 387
IA DP+ + W A P+ FLA C EY V G + LP+ D +CSG+QH
Sbjct: 486 IAADPL-TFTQWAKADAPYEFLAWCFEYAQYLDLVDEGRADEFRTHLPVHQDGSCSGIQH 544
Query: 388 LSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEAAIK----YIEDESIHPY--------- 434
S+M RD V AK VN+ D P D Y VA+ IK Y++ + +
Sbjct: 545 YSAMLRDEVGAKAVNL--KPSDAPQDIYGAVAQVVIKKNALYMDADDATTFTSGSVTLSG 602
Query: 435 --------------MNRKITKRTVMTVPYGVSRDSARAYI---------REA-------- 463
+ R +TK+ VMT+PYG +R + R + +EA
Sbjct: 603 TELRAMASAWDSIGITRSLTKKPVMTLPYGSTRLTCRESVIDYIVDLEEKEAQKAVAEGR 662
Query: 464 -------LHDAGFDLSTKGRLGQVTDAVYRKAVPEVFAGPVDVMNWLQQTAMDLLDAGAE 516
D D T G A+ ++ EV P+ M ++Q A E
Sbjct: 663 TANKVHPFEDDRQDYLTPGAAYNYMTALIWPSISEVVKAPIVAMKMIRQLARFAAKRN-E 721
Query: 517 QIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQ-QIRVADGFAGPDRQRHKGAIAPNLVH 575
+ +T P+GF + Q I ++T LMG ++ ++V D GA APN VH
Sbjct: 722 GLMYTLPTGFILEQKIMATEMLRVRTCLMGDIKMSLQVETDIV--DEAAMMGAAAPNFVH 779
Query: 576 SLDASLLHLMFYE-YDKPFT---VIHD 598
DAS L L E DK T VIHD
Sbjct: 780 GHDASHLILTVCELVDKGVTSIAVIHD 806
>dbj|BAB13497.1| (AB028633) RNA polymerase [Flammulina velutipes]
Length = 1168
Score = 115 bits (289), Expect = 1e-024
Identities = 128/546 (23%), Positives = 230/546 (41%), Gaps = 116/546 (21%)
Query: 116 PMVCPPNDWTDEGRGGYLTEEIRGTAPMIRKVGKPIGDS---KQGTIPVEFLNNLQRQSY 172
P++C P+ W ++ GG+L + ++ +IR + S K + + +N L + +
Sbjct: 585 PLICEPDKWGEKEIGGFLIKTPTNSS-LIRNNNRNFETSHNIKNMGVSYDVINQLNKIKF 643
Query: 173 RINAAILAVANWCYDNSRTVGKFIHDQPRERLDSFNGDPKAEPERFKEWKRMQRSIDDFN 232
R+N + Y+ G +I ++ DS N P++F+ + +Q
Sbjct: 644 RVNKLL-------YNYLENEGNYIW----QKFDSEN------PDKFQTYITLQ------- 679
Query: 233 AQLFQRNWRATETMFVANQYDDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLLLFAE 292
+A + + +F++ D+RGR+Y + LN QG+D SLL+FAE
Sbjct: 680 ---------------IAKTFLENIFYLNNFIDWRGRIYNYSFGLNFQGSDLSSSLLVFAE 724
Query: 293 EGEVDE---YWLAWHVCTTYGNDKLSHN---DRVAWTQENHELITIIAEDPIGAISLWEG 346
++E Y+ ++ + +KLS +R W +N+ I + +D L G
Sbjct: 725 GEPLNESGIYYFYINLANNHNENKLSKKSFVERYNWVVKNYNKIVNLDKD------LILG 778
Query: 347 AGEPWMFLAACI---EYHACVITGAKQTSGLPIGIDATCSGLQHLSSMTRDAVAAKQVNV 403
A + + FL+ + EY PI +DATCSG+QH++ + ++ A N+
Sbjct: 779 AEKIFNFLSLALVLREYD----KDKNYIVNTPIFLDATCSGIQHVAGLIKEFDLATATNL 834
Query: 404 IRGDQ-DGPSDGYKTVAEAAIKYIEDESIHPYMN------------RKITKRTVMTVPYG 450
+Q D P+D Y V E K + D Y+N R+I K ++MT Y
Sbjct: 835 SPANQFDSPNDLYSDVVEKVNKELND---FGYLNIEYSNLQKVKLTREILKESIMTKVYN 891
Query: 451 VSRDSARAYIREA---LHDAGFD--------LSTKGRLGQ-----------------VTD 482
V+ I++ L D + L K ++G+ + D
Sbjct: 892 VTIYGMTEQIKKKIRFLKDPYIEREEIFVNNLQKKIQIGKYIYKVPSKIKGEDIILNIKD 951
Query: 483 -----AVYRKAVPEVFAGPVDVMNWLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRT 537
+ + + + + G V ++L+ A L + + W TP+G + Q K +T
Sbjct: 952 IYKIAKILNETIFKEYKGLEKVYSFLKSMA-KLTNKLNIPLNWITPAGLDITQKYNKTKT 1010
Query: 538 KLIKTTLMGSVQQIRVADGFAGPDRQRHKGAIAPNLVHSLDASLLHLMFYEYDK----PF 593
I L G +Q+ + + + + + AI PN++HSLDAS L+ + E K
Sbjct: 1011 SSISIKLFGRTKQLNLTEKTDELNTFKQELAIIPNVIHSLDASHLYEIILETRKNNINNI 1070
Query: 594 TVIHDC 599
+HDC
Sbjct: 1071 LAVHDC 1076
>ref|NP_049543.1| (NC_000843) RNA polymerase [Neurospora crassa]
gb|AAD31445.1| (AF133505) RNA polymerase [Neurospora crassa]
Length = 896
Score = 113 bits (282), Expect = 7e-024
Identities = 111/397 (27%), Positives = 171/397 (42%), Gaps = 56/397 (14%)
Query: 253 DDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLLLFAEEGEVDEYWLAW---HVCTTY 309
D + F++ D+RGR Y + LN QG + +SLLLF E ++++ L + +
Sbjct: 423 DVKEFYMTVFIDWRGRFYTSSCALNIQGGELARSLLLFKEGQKLNDIGLKALKIYTANAF 482
Query: 310 GNDKLSHNDRVAWTQEN-HELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVITGA 368
G DK S +R+ W ++N H++I I +W A EP +FLA +E + G
Sbjct: 483 GLDKRSKEERLDWVEQNLHKIIDI------DNYEIWREADEPLLFLACALE-----LKGY 531
Query: 369 KQT----SGLPIGIDATCSGLQHLSSMTRDAVAAKQVNVIRG-DQDGPSDGY-------- 415
K+ S LPI +DATC+GLQHLS+M D V A++VN+++ + D P D Y
Sbjct: 532 KEDPNFISHLPILMDATCNGLQHLSAMVNDFVLAEKVNLLKSTENDNPRDLYSEVIPHIK 591
Query: 416 KTVAEAAIKYIEDESIHPYMNRKITKRTVMTVPYGVSRDSARAYI------------REA 463
+ + EA+ Y + R + KR +MT+ YG + I
Sbjct: 592 QEILEASKSYEHTNLERINVERCLVKRGLMTITYGATERGIYDQIVSKFFQKDEWNKTAG 651
Query: 464 LHDAGFDLSTKGR---LGQVTDAVYRKAVPEVFAGPVDVMNWLQQTAMDLLDAGAE---Q 517
LH D + Q ++ K + +N L ++ E
Sbjct: 652 LHFVCIDSDIAPKDVVFTQKNILLWSKIIYNSLFKIHPNLNTLMVYFNSIVKVLCELDLP 711
Query: 518 IEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQ---IRVADGFAGPDRQRHKGAIAPNLV 574
+ W TP G V+Q TK +TT + S + +R AD +Q+ A PN V
Sbjct: 712 VNWVTPYGL-VIQQKYNKFTKYNETTYVASKRYKLVLRKAD-TTSISKQKQIQAFIPNFV 769
Query: 575 HSLDASLLHLMFYEYDKP-----FTVIHDCILGRSCD 606
HS+D S + L+ F IHDC + D
Sbjct: 770 HSMDGSNIVLLIKTIRDEGRKINFASIHDCFATHAND 806
>pir||S17908 hypothetical protein 1 - Neurospora intermedia
Length = 811
Score = 104 bits (259), Expect = 3e-021
Identities = 102/406 (25%), Positives = 168/406 (41%), Gaps = 51/406 (12%)
Query: 245 TMFVANQYDDEVFWIPWSFDYRGRVYPQNTQLNPQGTDFDKSLLLFAEEGEVDEYWLAWH 304
T+ +A Y + F++ + D+RGR+Y Q+ L+ QG++ +L+ E ++DE L +
Sbjct: 336 TIDIARTYLNTPFYLNVNIDWRGRIYTQSFYLDYQGSELSLALINLFEGKKLDEKGLFFF 395
Query: 305 VCTTYG----ND-----KLSHNDRVAWTQENHELITIIAEDPIGAISLWEGAGEPWMFLA 355
YG ND K S DR W EN L IIA D + A P +F A
Sbjct: 396 Y--VYGANIYNDGGKFSKKSFQDRFNWVVEN--LDNIIAMDKEFILK----AESPTLFAA 447
Query: 356 ACIEYHACVITGAKQTSGLPIGIDATCSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGY 415
C+ PI +DATCSG+QH ++M D K VN+I + +D Y
Sbjct: 448 FCLTMRKLKENPDYPVFN-PIFLDATCSGVQHFAAMLLDLELGKYVNLINSG-ESVNDFY 505
Query: 416 KTVAEAAIKYIEDESIHPY---------MNRKITKRTVMTVPYGVSRDSARAYIREALHD 466
+ A K I + + + +NR + K+ +MT Y V+ ++ L
Sbjct: 506 SQLIPAINKAINESAEKKFKNLKFSDISLNRSLLKKVIMTKSYNVTTYGITEQLKSKLEV 565
Query: 467 AGFDLSTKGRLGQVTD----------------------AVYRKAVPEVFAGPVDVMNWLQ 504
+ +KG+ +V D ++ + F + ++L
Sbjct: 566 KEKIVISKGKEIKVYDYLVPTKNGDFVVLDTFEVETLASIINDNIFNQFPKLHSIYDYLT 625
Query: 505 QTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTLMGSVQQIRVADGFAGPDRQR 564
+ A L + W+TP G + Q + K + +G + + D +R
Sbjct: 626 RLAKIYLKLDI-PLSWSTPDGLELTQRYNLSKVKKLTINFLGKNRTAVLRSWVNEKDSRR 684
Query: 565 HKGAIAPNLVHSLDASLLHLMFYEYDKPFTVIHDCILGRSCDMNEM 610
AI PN++HSLDAS L ++ +D IH+C DM ++
Sbjct: 685 EVQAIIPNIIHSLDASHLTMIIDSWDSYILPIHECFGTHPNDMYKL 730
>pir||T28421 probable DNA-directed RNA polymerase (EC 2.7.7.6) - Pichia kluyveri
mitochondrion linear plasmid
emb|CAA72339.1| (Y11606) RNA polymerase [Pichia kluyveri]
Length = 992
Score = 96.3 bits (238), Expect = 9e-019
Identities = 97/389 (24%), Positives = 159/389 (39%), Gaps = 55/389 (14%)
Query: 116 PMVCPPNDWTDEGR----------------GGYLTEEIRGTAPMIRKVGKPIGDSKQGTI 159
PMVC P D+ + GGYL M SK +
Sbjct: 301 PMVCKPKDYESKTMEMKTKNNEVVRNKVIYGGYLLNGDTVYHNMYYSKPSMKMLSKFNDV 360
Query: 160 PVEFLNNLQRQSYRINAAILAVANWCYDNSRTVGKFIH-DQPRERLDSFNGDPKAEPERF 218
+ +NNLQ SY++N +L +W N + D P G
Sbjct: 361 YMSTMNNLQSVSYKMNKDML---DWIIKNYEKYNLYTPWDTPMAYEHDIFG--------- 408
Query: 219 KEWKRMQRSI-DDFNAQLFQRNWRATETMFVANQYDDEVFWIPWSFDYRGRVYPQNTQLN 277
KE KR +++ D A++ +R+ T + + + P D+RGRVY Q+ ++
Sbjct: 409 KEGKRTSKNVVKDCLAKMSKRDLENDMTDMAKSFKNVSKMYFPLRVDFRGRVYAQSV-IS 467
Query: 278 PQGTDFDKSLLLFAEEGEV---DEYWLAWHVCTTYGNDKLSHNDRVAWTQENHELITIIA 334
Q TD K+LL F E +V D +L YG DK SH +R+ W + N L+ +
Sbjct: 468 YQSTDTAKALLDFGEVYKVNMDDVEYLFMSGANAYGLDKKSHMERINWIKTNSVLMYNLD 527
Query: 335 EDPIGAISLWEGAGEPWMFLAACIEYHACVITGAKQT----SGLPIGIDATCSGLQHLSS 390
E+ L A +F+ C+EY + Q S + +DATC+G QH++
Sbjct: 528 EE------LMRTADNKLLFVKFCLEYRKYMDALNSQQKYYYSNYMVYVDATCNGFQHMAL 581
Query: 391 MTRDAVAAKQVNVIRGDQD-GPSDGYKTVAEAAIKYIED----------ESIHPYMNRKI 439
+D + VN+ +D P D Y + ++ + ++D ++ + RK+
Sbjct: 582 TLKDPLTCYNVNLANTSKDMSPRDFYTFIKDSVLDNMKDMNMNKNNSVERTLEMGLTRKM 641
Query: 440 TKRTVMTVPYGVSRDSARAYIREALHDAG 468
K VM +PY + Y+ ++L+ G
Sbjct: 642 MKTMVMIMPYNAGVTTMTKYLEDSLNYMG 670
>gb|AAB64106.1| (AF005725) RNA polymerase [Ascosphaera aggregata]
Length = 441
Score = 82.8 bits (203), Expect = 1e-014
Identities = 86/358 (24%), Positives = 149/358 (41%), Gaps = 67/358 (18%)
Query: 309 YGN--DKLSHNDRVAWTQENHELITIIAEDPIGAISLWEGAGEPWMFLAACIEYHACVIT 366
+GN DKLS +DR+ W +N + I +L A +F+A C E++ +
Sbjct: 19 FGNKIDKLSFDDRIKWVDDNIDDIINFKN-----FNLINKAESKLLFIAFCFEFNKFLNF 73
Query: 367 GAKQTSG-----LPIGIDATCSGLQHLSSMTRDAVAAKQVNVIRGDQDGPSDGYKTVAEA 421
++S LPI +DA+C+G QH++ + RD AK +N D D + +
Sbjct: 74 LNDESSSYFISHLPIQLDASCNGFQHIAMLVRDGNLAKTLNFGISYWDNIPDDFYSFIAT 133
Query: 422 AIKYIED-------------ESIHPY----MNRKITKRTVMTVPYGVSRDSARAYIREAL 464
+K D ESI+ +NR + K+ +MT+PY + + Y++
Sbjct: 134 HLKEFYDYALNSKSSDNKTIESIYRLKDLTINRAMIKKAIMTIPYNATSVALIDYLK--- 190
Query: 465 HDAGFDLSTKGRLGQV---TDAVY----------------------RKAVPEVFAGPVDV 499
+ FDL K ++ + D VY + + +VF ++
Sbjct: 191 --SDFDLIPKDQIPEEFKGDDLVYEFKNDKNIILKGNDFVVLYKGIKYILTKVFPS-LEK 247
Query: 500 MNWLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRK-PRTKLIKTTLMGSVQQIRVADGFA 558
+ + +D+ I W PSG + Q K +T++ QI V D +
Sbjct: 248 LGEYFNSIVDICCLFKLTIPWVLPSGLVIEQSYAKTSKTRITPLNYSKISYQINVVDK-S 306
Query: 559 GPDRQRHKGAIAPNLVHSLDASLLHLMFYEY-----DKPFTVIHDCILGRSCDMNEMM 611
D+ + K + PN +HSLD+S L ++ + K IHDC S +M +++
Sbjct: 307 NFDKNKQKAGLMPNFIHSLDSSTLIMVLRSHFNKSGYKNIYAIHDCFAVTSNNMQQLI 364
>gb|AAD11786.1| (AF096909) RNA polymerase [Agaricus subrutilescens]
Length = 246
Score = 65.9 bits (159), Expect = 1e-009
Identities = 61/243 (25%), Positives = 107/243 (43%), Gaps = 43/243 (17%)
Query: 335 EDPIGAISLWEGAGEPWMFLAACIEYHACV-ITGAKQTSGLPIGIDATCSGLQHLSSMTR 393
ED I IS EP+ F++ I Y + I+ K PI DA+CSG+QH++++T
Sbjct: 1 EDNIDKIS------EPFQFIS--IMYAKLLSISNPKANISNPILFDASCSGIQHIAALTL 52
Query: 394 DAVAAKQVNVIRGDQDGPSDGYKTVAEAAIKYIEDESIHP--------YMNRKITKRTVM 445
+ A VNV + D + A++ I D+ I+ +NRKI KR+VM
Sbjct: 53 EKELASNVNVYTDSSNPKEDYPQDFYTYALEKIRDKLINSEITELRDIQLNRKIIKRSVM 112
Query: 446 TVPYGVSRDSARAYIRE---------------------ALHDAGFDLSTKGRLGQVTDAV 484
T+PY +S ++ E + D D S G+L ++ V
Sbjct: 113 TIPYNISMAGIGEHLMEHFTVKTVLKYRYVVIPGSATISSKDVYLDYSKYGQLCKIIYFV 172
Query: 485 YRKAVPEVFAGPVDVMNWLQQTAMDLLDAGAEQIEWTTPSGFRVVQDIRKPRTKLIKTTL 544
K +P + +++ ++ +D+ I W TPSG ++ K + + +K ++
Sbjct: 173 LTKELPS-----LRLLSNYFESMIDIFVKLNIPITWVTPSGLKIKYTNIKFKPQKVKASV 227
Query: 545 MGS 547
+ +
Sbjct: 228 LNT 230
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.321 0.136 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 385,059,919
Number of Sequences: 922426
Number of extensions: 16576229
Number of successful extensions: 29006
Number of sequences better than 5.0e-02: 89
Number of HSP's better than 0.1 without gapping: 55
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 28520
Number of HSP's gapped (non-prelim): 137
length of query: 655
length of database: 289,484,438
effective HSP length: 127
effective length of query: 528
effective length of database: 172,336,336
effective search space: 90993585408
effective search space used: 90993585408
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 94 (40.8 bits)
Query= orf9 [1367-1952]
(584 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570317.1| (NC_003390) chemoreceptor-like protein [Cy... 1088 0.0
>ref|NP_570317.1| (NC_003390) chemoreceptor-like protein [Cyanophage P60]
gb|AAL73255.1| (AF338467) chemoreceptor-like protein [Cyanophage P60]
Length = 554
Score = 1088 bits (2815), Expect = 0.0
Identities = 554/554 (100%), Positives = 554/554 (100%)
Query: 31 MLGRLFDQEGIFRNADFEYIPTGGADELKLTEGMHARSQTARAPMGPAPTNKVDAAASAV 90
MLGRLFDQEGIFRNADFEYIPTGGADELKLTEGMHARSQTARAPMGPAPTNKVDAAASAV
Sbjct: 1 MLGRLFDQEGIFRNADFEYIPTGGADELKLTEGMHARSQTARAPMGPAPTNKVDAAASAV 60
Query: 91 ADTGYGAPNTAQRVMTDAKFAMIAEGTDDYTQKILRQMIEDGSVPLNNLSKVVGKPVEQL 150
ADTGYGAPNTAQRVMTDAKFAMIAEGTDDYTQKILRQMIEDGSVPLNNLSKVVGKPVEQL
Sbjct: 61 ADTGYGAPNTAQRVMTDAKFAMIAEGTDDYTQKILRQMIEDGSVPLNNLSKVVGKPVEQL 120
Query: 151 AQEANEFIQMVTGGSGTIDFSKIKGAAKDQYGKEILSDAQLVGVIQMMKDTAKAISDNVQ 210
AQEANEFIQMVTGGSGTIDFSKIKGAAKDQYGKEILSDAQLVGVIQMMKDTAKAISDNVQ
Sbjct: 121 AQEANEFIQMVTGGSGTIDFSKIKGAAKDQYGKEILSDAQLVGVIQMMKDTAKAISDNVQ 180
Query: 211 GITQKFDAGMDIADDLARLINQQKALMKIHKETVSYQGRSLWNNKIKLDEVDIDNPLPNV 270
GITQKFDAGMDIADDLARLINQQKALMKIHKETVSYQGRSLWNNKIKLDEVDIDNPLPNV
Sbjct: 181 GITQKFDAGMDIADDLARLINQQKALMKIHKETVSYQGRSLWNNKIKLDEVDIDNPLPNV 240
Query: 271 DVQKLNRQYEAATKKLDQMLEAATSGDPAAKQEAYRMALQLNLADGRPEDLVSIQKSIGS 330
DVQKLNRQYEAATKKLDQMLEAATSGDPAAKQEAYRMALQLNLADGRPEDLVSIQKSIGS
Sbjct: 241 DVQKLNRQYEAATKKLDQMLEAATSGDPAAKQEAYRMALQLNLADGRPEDLVSIQKSIGS 300
Query: 331 GITEQLLGNMYNSLLSGPETHLVNSLSSLFMAVYRPMSLAIGSGFKKNAEAFAAFHGINQ 390
GITEQLLGNMYNSLLSGPETHLVNSLSSLFMAVYRPMSLAIGSGFKKNAEAFAAFHGINQ
Sbjct: 301 GITEQLLGNMYNSLLSGPETHLVNSLSSLFMAVYRPMSLAIGSGFKKNAEAFAAFHGINQ 360
Query: 391 TVADAWRLSVDAWKKGKAGQLKNSKTGQKVTSGLEQLRTHQAYAEMSNNPFVKAAVGFES 450
TVADAWRLSVDAWKKGKAGQLKNSKTGQKVTSGLEQLRTHQAYAEMSNNPFVKAAVGFES
Sbjct: 361 TVADAWRLSVDAWKKGKAGQLKNSKTGQKVTSGLEQLRTHQAYAEMSNNPFVKAAVGFES 420
Query: 451 MMYDLKNNPILAWSGPLMEAEDAFASAISSRFEFNSNMMRRAIEEADGDNVDDVFRSLLN 510
MMYDLKNNPILAWSGPLMEAEDAFASAISSRFEFNSNMMRRAIEEADGDNVDDVFRSLLN
Sbjct: 421 MMYDLKNNPILAWSGPLMEAEDAFASAISSRFEFNSNMMRRAIEEADGDNVDDVFRSLLN 480
Query: 511 QEKKRYFTESGEILDPRLQEIADESTFRHKLEGKAAAFSSFVNSNPWIPAIISFMSHERP 570
QEKKRYFTESGEILDPRLQEIADESTFRHKLEGKAAAFSSFVNSNPWIPAIISFMSHERP
Sbjct: 481 QEKKRYFTESGEILDPRLQEIADESTFRHKLEGKAAAFSSFVNSNPWIPAIISFMSHERP 540
Query: 571 RMQSWMTVKGLSYS 584
RMQSWMTVKGLSYS
Sbjct: 541 RMQSWMTVKGLSYS 554
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.314 0.130 0.000
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 314,527,554
Number of Sequences: 922426
Number of extensions: 12809614
Number of successful extensions: 27974
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 27973
Number of HSP's gapped (non-prelim): 1
length of query: 584
length of database: 289,484,438
effective HSP length: 126
effective length of query: 458
effective length of database: 173,258,762
effective search space: 79352512996
effective search space used: 79352512996
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 94 (40.8 bits)
Query= orf10 [1963-2181]
(217 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570318.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 435 e-121
>ref|NP_570318.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73256.1| (AF338467) unknown [Cyanophage P60]
Length = 240
Score = 435 bits (1119), Expect = e-121
Identities = 217/217 (100%), Positives = 217/217 (100%)
Query: 1 MDRPMQQFMDENGIGYRYYDLSTGKDVDINNTDLTFEDIGLDIDAASKKKLRELLSEGGQ 60
MDRPMQQFMDENGIGYRYYDLSTGKDVDINNTDLTFEDIGLDIDAASKKKLRELLSEGGQ
Sbjct: 24 MDRPMQQFMDENGIGYRYYDLSTGKDVDINNTDLTFEDIGLDIDAASKKKLRELLSEGGQ 83
Query: 61 YQGVRYDPTFQTNERGAGTETFLFDPSQVRIAKPKVQTDYSKFTGYRRMLEEGADYVAMT 120
YQGVRYDPTFQTNERGAGTETFLFDPSQVRIAKPKVQTDYSKFTGYRRMLEEGADYVAMT
Sbjct: 84 YQGVRYDPTFQTNERGAGTETFLFDPSQVRIAKPKVQTDYSKFTGYRRMLEEGADYVAMT 143
Query: 121 KDSILQENFMRLYEQAANGVPVSIDDVKLLFPEKFTPGTRVVQEPRIVGLDEAIERLPET 180
KDSILQENFMRLYEQAANGVPVSIDDVKLLFPEKFTPGTRVVQEPRIVGLDEAIERLPET
Sbjct: 144 KDSILQENFMRLYEQAANGVPVSIDDVKLLFPEKFTPGTRVVQEPRIVGLDEAIERLPET 203
Query: 181 GGFTIDPTTGQAPTDGVMVAIDGVSLDKLDDDSIAAS 217
GGFTIDPTTGQAPTDGVMVAIDGVSLDKLDDDSIAAS
Sbjct: 204 GGFTIDPTTGQAPTDGVMVAIDGVSLDKLDDDSIAAS 240
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.137 0.000
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 132,416,507
Number of Sequences: 922426
Number of extensions: 5799729
Number of successful extensions: 12723
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 12722
Number of HSP's gapped (non-prelim): 1
length of query: 217
length of database: 289,484,438
effective HSP length: 116
effective length of query: 101
effective length of database: 182,483,022
effective search space: 18430785222
effective search space used: 18430785222
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 88 (38.5 bits)
Query= orf11 [2184-2397]
(212 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570319.1| (NC_003390) EspB-like protein [Cyanophage ... 342 2e-093
>ref|NP_570319.1| (NC_003390) EspB-like protein [Cyanophage P60]
gb|AAL73257.1| (AF338467) EspB-like protein [Cyanophage P60]
Length = 212
Score = 342 bits (876), Expect = 2e-093
Identities = 174/197 (88%), Positives = 174/197 (88%)
Query: 16 IVQSGLVGARAGIIGDMVSASSGEGNLSTLIQDYAPEWYPQWLTALAVQEDDNPLTAMAK 75
IVQSGLVGARAGIIGDMVSASSGEGNLSTLIQDYAPEWYPQWLTALAVQEDDNPLTAMAK
Sbjct: 16 IVQSGLVGARAGIIGDMVSASSGEGNLSTLIQDYAPEWYPQWLTALAVQEDDNPLTAMAK 75
Query: 76 TAAEGSVLGFAIDXXXXXXXXXXXXXXXXXXXXXXXEIAKAAETGFMKHQEAVERAGNAG 135
TAAEGSVLGFAID EIAKAAETGFMKHQEAVERAGNAG
Sbjct: 76 TAAEGSVLGFAIDGMGAFLAGARAANRARAGKATDAEIAKAAETGFMKHQEAVERAGNAG 135
Query: 136 KTAQEAIEHVRQRMADVQRPSPVYHATSPEAAELSVGVVSKVDLKVPTSSDLVSTLPTIW 195
KTAQEAIEHVRQRMADVQRPSPVYHATSPEAAELSVGVVSKVDLKVPTSSDLVSTLPTIW
Sbjct: 136 KTAQEAIEHVRQRMADVQRPSPVYHATSPEAAELSVGVVSKVDLKVPTSSDLVSTLPTIW 195
Query: 196 PMPSPMALRCWRSTPRG 212
PMPSPMALRCWRSTPRG
Sbjct: 196 PMPSPMALRCWRSTPRG 212
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.313 0.128 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 93,050,726
Number of Sequences: 922426
Number of extensions: 3070012
Number of successful extensions: 7199
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 7198
Number of HSP's gapped (non-prelim): 1
length of query: 212
length of database: 289,484,438
effective HSP length: 115
effective length of query: 97
effective length of database: 183,405,448
effective search space: 17790328456
effective search space used: 17790328456
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 88 (38.5 bits)
Query= orf12 [2517-2633]
(115 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570320.1| (NC_003390) PspA-like protein [Cyanophage ... 131 1e-030
>ref|NP_570320.1| (NC_003390) PspA-like protein [Cyanophage P60]
gb|AAL73258.1| (AF338467) PspA-like protein [Cyanophage P60]
Length = 115
Score = 131 bits (329), Expect = 1e-030
Identities = 72/115 (62%), Positives = 72/115 (62%)
Query: 1 MNDDLQSQIDAQFDALAQTENEEEKMRRLXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 60
MNDDLQSQIDAQFDALAQTENEEEKMRRL
Sbjct: 1 MNDDLQSQIDAQFDALAQTENEEEKMRRLAEEAKAAQASAPLVEQPAAPAPQPESAPSPA 60
Query: 61 XXXXXXXXXXXXEEKKGPGALGPSAQVSGVEKFLEEHIGIPGADLVNTSELPRTD 115
EEKKGPGALGPSAQVSGVEKFLEEHIGIPGADLVNTSELPRTD
Sbjct: 61 PESAPPVASGPVEEKKGPGALGPSAQVSGVEKFLEEHIGIPGADLVNTSELPRTD 115
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.307 0.130 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 40,437,574
Number of Sequences: 922426
Number of extensions: 923555
Number of successful extensions: 1154
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1152
Number of HSP's gapped (non-prelim): 1
length of query: 115
length of database: 289,484,438
effective HSP length: 91
effective length of query: 24
effective length of database: 205,543,672
effective search space: 4933048128
effective search space used: 4933048128
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 83 (36.6 bits)
Query= orf13 [2652-2949]
(296 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570321.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 610 e-174
gb|AAK21260.1|AF335472_1 (AF335472) variant surface glycopr... 42 0.007
>ref|NP_570321.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73259.1| (AF338467) unknown [Cyanophage P60]
Length = 305
Score = 610 bits (1573), Expect = e-174
Identities = 296/296 (100%), Positives = 296/296 (100%)
Query: 1 MAAEISPSGSAVAPTQAPAAGDMKQGYSMLRGMGIPHKGAAYLAGNIMQESSWQGQRTWG 60
MAAEISPSGSAVAPTQAPAAGDMKQGYSMLRGMGIPHKGAAYLAGNIMQESSWQGQRTWG
Sbjct: 10 MAAEISPSGSAVAPTQAPAAGDMKQGYSMLRGMGIPHKGAAYLAGNIMQESSWQGQRTWG 69
Query: 61 EVQGDGSDRNGGIVSWMDDAEKGHFRLRNIERILGKPINQASTQEQAQAMLKEMKASYPD 120
EVQGDGSDRNGGIVSWMDDAEKGHFRLRNIERILGKPINQASTQEQAQAMLKEMKASYPD
Sbjct: 70 EVQGDGSDRNGGIVSWMDDAEKGHFRLRNIERILGKPINQASTQEQAQAMLKEMKASYPD 129
Query: 121 AYRTFMNPNSSDADLRWASKRYWGYGHEGRRFQYARQLDNNRPTVQRTSNTTGSWGSPIY 180
AYRTFMNPNSSDADLRWASKRYWGYGHEGRRFQYARQLDNNRPTVQRTSNTTGSWGSPIY
Sbjct: 130 AYRTFMNPNSSDADLRWASKRYWGYGHEGRRFQYARQLDNNRPTVQRTSNTTGSWGSPIY 189
Query: 181 RIESRGYGSTGPHLDVKPVKPGGVYGDRSARMKPTDLDRYVGVQTASGIKPLSQGTVVTD 240
RIESRGYGSTGPHLDVKPVKPGGVYGDRSARMKPTDLDRYVGVQTASGIKPLSQGTVVTD
Sbjct: 190 RIESRGYGSTGPHLDVKPVKPGGVYGDRSARMKPTDLDRYVGVQTASGIKPLSQGTVVTD 249
Query: 241 NDQAHRNRGSFGVDFATPDGRSGMPVVLRNGARVIENVTDNSARGARTRPHRDRAS 296
NDQAHRNRGSFGVDFATPDGRSGMPVVLRNGARVIENVTDNSARGARTRPHRDRAS
Sbjct: 250 NDQAHRNRGSFGVDFATPDGRSGMPVVLRNGARVIENVTDNSARGARTRPHRDRAS 305
>gb|AAK21260.1|AF335472_1 (AF335472) variant surface glycoprotein VSG 10.3 [Trypanosoma
brucei]
Length = 438
Score = 42.0 bits (97), Expect = 0.007
Identities = 25/80 (31%), Positives = 42/80 (52%), Gaps = 2/80 (2%)
Query: 44 AGNIMQESSWQGQRTWGEVQGD--GSDRNGGIVSWMDDAEKGHFRLRNIERILGKPINQA 101
A NI Q + Q + G +Q D G + N I S+ + + F+ + I +LGKP N+A
Sbjct: 247 AVNITQGVAEQTKAALGRLQSDLSGDECNEAITSYSSVSSQPAFKRQAIRTLLGKPENEA 306
Query: 102 STQEQAQAMLKEMKASYPDA 121
T E + ++KA+Y ++
Sbjct: 307 ETTEPTSELTDKLKANYGES 326
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.314 0.131 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 187,482,770
Number of Sequences: 922426
Number of extensions: 8616209
Number of successful extensions: 13629
Number of sequences better than 5.0e-02: 2
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 13628
Number of HSP's gapped (non-prelim): 2
length of query: 296
length of database: 289,484,438
effective HSP length: 119
effective length of query: 177
effective length of database: 179,715,744
effective search space: 31809686688
effective search space used: 31809686688
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 90 (39.3 bits)
Query= orf14 [2945-3430]
(484 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570322.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 912 0.0
>ref|NP_570322.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73260.1| (AF338467) unknown [Cyanophage P60]
Length = 484
Score = 912 bits (2356), Expect = 0.0
Identities = 471/484 (97%), Positives = 471/484 (97%)
Query: 1 MQADPSQIPSDPRERNALIRGLIQQQVRMAGNLTKFQKSKLAGVLKQAYGNAAQTLASRR 60
MQADPSQIPSDPRERNALIRGLIQQQVRMAGNLTKFQKSKLAGVLKQAYGNAAQTLASRR
Sbjct: 1 MQADPSQIPSDPRERNALIRGLIQQQVRMAGNLTKFQKSKLAGVLKQAYGNAAQTLASRR 60
Query: 61 ASFLKDEGAAITEQELDALSISGIGGQALWDQARDAVAFSTGNGTRGYSALNTQKAYTAI 120
ASFLKDEGAAITEQELDALSISGIGGQALWDQARDAVAFSTGNGTRGYSALNTQKAYTAI
Sbjct: 61 ASFLKDEGAAITEQELDALSISGIGGQALWDQARDAVAFSTGNGTRGYSALNTQKAYTAI 120
Query: 121 RQRLVKNGDVEALRQLRNAVVNPNTGKTIGQTYGADLQNAIREAEKNKMGQFDHRMRVQK 180
RQRLVKNGDVEALRQLRNAVVNPNTGKTIGQTYGADLQNAIREAEKNKMGQFDHRMRVQK
Sbjct: 121 RQRLVKNGDVEALRQLRNAVVNPNTGKTIGQTYGADLQNAIREAEKNKMGQFDHRMRVQK 180
Query: 181 QELTSITQQYLHGELSREDAIARLSAIGTEAARREINTLTQGQGIQHRPELEFEIESRAA 240
QELTSITQQYLHGELSREDAIARLSAIGTEAARREINTLTQGQGIQHRPELEFEIESRAA
Sbjct: 181 QELTSITQQYLHGELSREDAIARLSAIGTEAARREINTLTQGQGIQHRPELEFEIESRAA 240
Query: 241 AGNPIPPEVIEEWRREGYISDKVAKQYGPSGESSAATKTAGQVVDADFKKQIKEVLLSNT 300
AGNPIPPEVIEEWRREGYISDKVAKQYGPSGESSAATKTAGQVVDADFKKQIKEVLLSNT
Sbjct: 241 AGNPIPPEVIEEWRREGYISDKVAKQYGPSGESSAATKTAGQVVDADFKKQIKEVLLSNT 300
Query: 301 EQGTTLGSAAAKEIAGQIATRTGALQDLIKKDLAGAIRRGEISXXXXXXXXXXXXXRLQH 360
EQGTTLGSAAAKEIAGQIATRTGALQDLIKKDLAGAIRRGEIS RLQH
Sbjct: 301 EQGTTLGSAAAKEIAGQIATRTGALQDLIKKDLAGAIRRGEISATETTAQYAYAEQRLQH 360
Query: 361 YLKQDRFTIQDGETGSRGFKAPLNPPARAGALDNAVQGQDGSWSLSQVGTGDLSSATPAQ 420
YLKQDRFTIQDGETGSRGFKAPLNPPARAGALDNAVQGQDGSWSLSQVGTGDLSSATPAQ
Sbjct: 361 YLKQDRFTIQDGETGSRGFKAPLNPPARAGALDNAVQGQDGSWSLSQVGTGDLSSATPAQ 420
Query: 421 LNPSRNFLFRAEQLREEMKRYAAGQPLGERVGVIARKLGISEYEVIASQAKKYGLPLTCR 480
LNPSRNFLFRAEQLREEMKRYAAGQPLGERVGVIARKLGISEYEVIASQAKKYGLPLTCR
Sbjct: 421 LNPSRNFLFRAEQLREEMKRYAAGQPLGERVGVIARKLGISEYEVIASQAKKYGLPLTCR 480
Query: 481 SDGS 484
SDGS
Sbjct: 481 SDGS 484
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.313 0.130 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 249,249,187
Number of Sequences: 922426
Number of extensions: 9816129
Number of successful extensions: 23411
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 23410
Number of HSP's gapped (non-prelim): 1
length of query: 484
length of database: 289,484,438
effective HSP length: 124
effective length of query: 360
effective length of database: 175,103,614
effective search space: 63037301040
effective search space used: 63037301040
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 93 (40.4 bits)
Query= orf15 [3474-3529]
(54 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.313 0.132 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,276,213
Number of Sequences: 922426
Number of extensions: 872390
Number of successful extensions: 1608
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1608
Number of HSP's gapped (non-prelim): 0
length of query: 54
length of database: 289,484,438
effective HSP length: 30
effective length of query: 24
effective length of database: 261,811,658
effective search space: 6283479792
effective search space used: 6283479792
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf16 [3543-3597]
(53 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.326 0.138 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,973,836
Number of Sequences: 922426
Number of extensions: 227908
Number of successful extensions: 243
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 243
Number of HSP's gapped (non-prelim): 0
length of query: 53
length of database: 289,484,438
effective HSP length: 29
effective length of query: 24
effective length of database: 262,734,084
effective search space: 6305618016
effective search space used: 6305618016
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 84 (37.0 bits)
Query= orf17 [3613-3659]
(45 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.322 0.139 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,335,613
Number of Sequences: 922426
Number of extensions: 622199
Number of successful extensions: 1105
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1105
Number of HSP's gapped (non-prelim): 0
length of query: 45
length of database: 289,484,438
effective HSP length: 21
effective length of query: 24
effective length of database: 270,113,492
effective search space: 6482723808
effective search space used: 6482723808
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf18 [3689-3807]
(117 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.311 0.132 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 62,748,724
Number of Sequences: 922426
Number of extensions: 2271844
Number of successful extensions: 4386
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 4386
Number of HSP's gapped (non-prelim): 0
length of query: 117
length of database: 289,484,438
effective HSP length: 93
effective length of query: 24
effective length of database: 203,698,820
effective search space: 4888771680
effective search space used: 4888771680
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 83 (36.6 bits)
Query= orf19 [3809-3894]
(84 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570325.1| (NC_003390) resistance-like protein [Cyano... 168 1e-041
ref|NP_268404.1| (NC_002662) HYPOTHETICAL PROTEIN [Lactococ... 37 0.032
>ref|NP_570325.1| (NC_003390) resistance-like protein [Cyanophage P60]
gb|AAL73263.1| (AF338467) resistance-like protein [Cyanophage P60]
Length = 84
Score = 168 bits (425), Expect = 1e-041
Identities = 84/84 (100%), Positives = 84/84 (100%)
Query: 1 MNDNSKNLAFLSRRVSALEKKVNSLETTVAENTVLIERLSEVVELTLNNQKYFKENWAQI 60
MNDNSKNLAFLSRRVSALEKKVNSLETTVAENTVLIERLSEVVELTLNNQKYFKENWAQI
Sbjct: 1 MNDNSKNLAFLSRRVSALEKKVNSLETTVAENTVLIERLSEVVELTLNNQKYFKENWAQI 60
Query: 61 QSKLKGFENCRAVFEEYFGKPKPA 84
QSKLKGFENCRAVFEEYFGKPKPA
Sbjct: 61 QSKLKGFENCRAVFEEYFGKPKPA 84
>ref|NP_268404.1| (NC_002662) HYPOTHETICAL PROTEIN [Lactococcus lactis subsp. lactis]
gb|AAK06345.1|AE006453_9 (AE006453) HYPOTHETICAL PROTEIN [Lactococcus lactis subsp. lactis]
Length = 173
Score = 37.4 bits (85), Expect = 0.032
Identities = 22/80 (27%), Positives = 44/80 (54%), Gaps = 4/80 (5%)
Query: 1 MNDNSKNLAFLSRRVSALEKKVNSLETTVAENTVLIERLSEVVELTLNNQKYFKENWAQI 60
M D + + L+ ++ + ++++N + +AE V I++ E++E L +QK F + +
Sbjct: 97 MKDKNAEIERLNSQLISKDQQLNVKDAQIAEKDVQIKKQQELMEKALTDQKQF---FTDL 153
Query: 61 QSKLKGFENCRAVFEEYFGK 80
Q +LK +N + F FGK
Sbjct: 154 QEQLKTTDN-KGFFGRLFGK 172
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.313 0.128 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 42,771,696
Number of Sequences: 922426
Number of extensions: 1259831
Number of successful extensions: 4517
Number of sequences better than 5.0e-02: 2
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 4516
Number of HSP's gapped (non-prelim): 2
length of query: 84
length of database: 289,484,438
effective HSP length: 60
effective length of query: 24
effective length of database: 234,138,878
effective search space: 5619333072
effective search space used: 5619333072
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf20 [3892-3959]
(66 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570326.1| (NC_003390) endonuclease A [Cyanophage P60... 139 6e-033
ref|NP_041972.1| (NC_001604) gene 3, endonuclease [Enteroba... 64 3e-010
ref|NP_064756.1| (NC_002519) RP Endonuclease I [Roseophage ... 64 4e-010
ref|NP_052083.1| (NC_001271) endonuclease [Bacteriophage ph... 63 6e-010
ref|NP_523312.1| (NC_003298) endonuclease [Bacteriophage T3... 63 8e-010
pdb|1FZR|A Chain A, Crystal Structure Of Bacteriophage T7 E... 62 1e-009
>ref|NP_570326.1| (NC_003390) endonuclease A [Cyanophage P60]
gb|AAL73264.1| (AF338467) endonuclease A [Cyanophage P60]
Length = 66
Score = 139 bits (350), Expect = 6e-033
Identities = 66/66 (100%), Positives = 66/66 (100%)
Query: 1 MNYRSGLEEKVSKWLDRENVPYLYEVQKFDYVTSSKYTPDFFLPNGVILEVKGFFKPSDR 60
MNYRSGLEEKVSKWLDRENVPYLYEVQKFDYVTSSKYTPDFFLPNGVILEVKGFFKPSDR
Sbjct: 1 MNYRSGLEEKVSKWLDRENVPYLYEVQKFDYVTSSKYTPDFFLPNGVILEVKGFFKPSDR 60
Query: 61 RKDASS 66
RKDASS
Sbjct: 61 RKDASS 66
>ref|NP_041972.1| (NC_001604) gene 3, endonuclease [Enterobacteria phage T7]
sp|P00641|ENRN_BPT7 ENDODEOXYRIBONUCLEASE I (ENDONUCLEASE)
pir||NEBP37 endodeoxyribonuclease I (EC 3.1.21.-) - phage T7
emb|CAA24345.1| (V01127) 3 protein [Enterobacteria phage T7]
emb|CAA24402.1| (V01146) gene 3, endonuclease [Enterobacteria phage T7]
Length = 149
Score = 63.9 bits (154), Expect = 3e-010
Identities = 30/63 (47%), Positives = 43/63 (67%), Gaps = 3/63 (4%)
Query: 3 YRSGLEEKVSKWLDRENVPYLYEVQKFDYV---TSSKYTPDFFLPNGVILEVKGFFKPSD 59
+RSGLE+KVSK L+ + + + YE K YV ++ YTPDF LPNG+ +E KG ++ D
Sbjct: 15 FRSGLEDKVSKQLESKGIKFEYEEWKVPYVIPASNHTYTPDFLLPNGIFVETKGLWESDD 74
Query: 60 RRK 62
R+K
Sbjct: 75 RKK 77
>ref|NP_064756.1| (NC_002519) RP Endonuclease I [Roseophage SIO1]
gb|AAG02601.1|AF189021_20 (AF189021) Roseophage SIO1 complete genome
Length = 134
Score = 63.5 bits (153), Expect = 4e-010
Identities = 33/62 (53%), Positives = 41/62 (65%), Gaps = 2/62 (3%)
Query: 3 YRSGLEEKVSKWLDRENVPYLYEVQKFDYVTSS--KYTPDFFLPNGVILEVKGFFKPSDR 60
YRSGLEE+ +K L + V + YE K ++ S YTPDF LPNGVI+E KG F +DR
Sbjct: 17 YRSGLEEQTAKDLKKRKVLFTYEETKIKWLDSKVRTYTPDFVLPNGVIIETKGRFVAADR 76
Query: 61 RK 62
RK
Sbjct: 77 RK 78
>ref|NP_052083.1| (NC_001271) endonuclease [Bacteriophage phiYeO3-12]
emb|CAB63604.1| (AJ251805) endonuclease [Bacteriophage phiYeO3-12]
Length = 153
Score = 63.2 bits (152), Expect = 6e-010
Identities = 29/63 (46%), Positives = 42/63 (66%), Gaps = 3/63 (4%)
Query: 3 YRSGLEEKVSKWLDRENVPYLYEVQKFDYVTSSK---YTPDFFLPNGVILEVKGFFKPSD 59
+RSGLE+KVSK L+ + + + YE+ + YV + YTPDF LPNG+ +E KG + D
Sbjct: 16 FRSGLEDKVSKQLESKGIKFDYELWRIPYVIPASDHLYTPDFLLPNGIFIETKGLWDSDD 75
Query: 60 RRK 62
R+K
Sbjct: 76 RKK 78
>ref|NP_523312.1| (NC_003298) endonuclease [Bacteriophage T3]
sp|P20314|ENRN_BPT3 ENDODEOXYRIBONUCLEASE I (ENDONUCLEASE)
pir||S07505 endodeoxyribonuclease I (EC 3.1.21.-) - phage T3
emb|CAA35132.1| (X17255) 3 [Bacteriophage T3]
emb|CAC86275.1| (AJ318471) endonuclease [Bacteriophage T3]
Length = 152
Score = 62.8 bits (151), Expect = 8e-010
Identities = 29/63 (46%), Positives = 41/63 (65%), Gaps = 3/63 (4%)
Query: 3 YRSGLEEKVSKWLDRENVPYLYEVQKFDYVTSSK---YTPDFFLPNGVILEVKGFFKPSD 59
+RSGLE+KVSK L+ + + + YE+ + YV YTPDF LPNG+ +E KG + D
Sbjct: 15 FRSGLEDKVSKQLESKGIKFDYELWRIPYVIPESDHLYTPDFLLPNGIFIETKGLWDSDD 74
Query: 60 RRK 62
R+K
Sbjct: 75 RKK 77
>pdb|1FZR|A Chain A, Crystal Structure Of Bacteriophage T7 Endonuclease I
pdb|1FZR|B Chain B, Crystal Structure Of Bacteriophage T7 Endonuclease I
pdb|1FZR|C Chain C, Crystal Structure Of Bacteriophage T7 Endonuclease I
pdb|1FZR|D Chain D, Crystal Structure Of Bacteriophage T7 Endonuclease I
Length = 138
Score = 62.4 bits (150), Expect = 1e-009
Identities = 29/63 (46%), Positives = 43/63 (68%), Gaps = 3/63 (4%)
Query: 3 YRSGLEEKVSKWLDRENVPYLYEVQKFDYV---TSSKYTPDFFLPNGVILEVKGFFKPSD 59
+RSGLE+KVSK L+ + + + YE K YV ++ YTPDF LPNG+ ++ KG ++ D
Sbjct: 4 FRSGLEDKVSKQLESKGIKFEYEEWKVPYVIPASNHTYTPDFLLPNGIFVKTKGLWESDD 63
Query: 60 RRK 62
R+K
Sbjct: 64 RKK 66
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.317 0.137 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 41,281,249
Number of Sequences: 922426
Number of extensions: 1363037
Number of successful extensions: 2730
Number of sequences better than 5.0e-02: 6
Number of HSP's better than 0.1 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2719
Number of HSP's gapped (non-prelim): 6
length of query: 66
length of database: 289,484,438
effective HSP length: 42
effective length of query: 24
effective length of database: 250,742,546
effective search space: 6017821104
effective search space used: 6017821104
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 84 (37.0 bits)
Query= orf21 [4005-4048]
(42 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.322 0.145 6.01e-154
Gapped
Lambda K H
0.267 0.0410 1.22e+285
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,679,538
Number of Sequences: 922426
Number of extensions: 558711
Number of successful extensions: 2033
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2033
Number of HSP's gapped (non-prelim): 0
length of query: 42
length of database: 289,484,438
effective HSP length: 18
effective length of query: 24
effective length of database: 272,880,770
effective search space: 6549138480
effective search space used: 6549138480
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 84 (37.0 bits)
Query= orf22 [4100-4578]
(477 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570328.1| (NC_003390) RP primase/helicase [Cyanophag... 929 0.0
ref|NP_064752.1| (NC_002519) RPprimase/helicase [Roseophage... 305 7e-082
ref|NP_052087.1| (NC_001271) DNA primase/helicase [Bacterio... 266 3e-070
ref|NP_052088.1| (NC_001271) helicase [Bacteriophage phiYeO... 266 3e-070
ref|NP_523315.1| (NC_003298) DNA primase/helicase [Bacterio... 265 6e-070
ref|NP_523316.1| (NC_003298) helicase [Bacteriophage T3] >g... 265 6e-070
ref|NP_041977.1| (NC_001604) gene 4B/helicase [14,15] [Ente... 256 4e-067
ref|NP_041975.1| (NC_001604) gene 4A, primase/helicase [14,... 256 4e-067
pdb|1CR1|A Chain A, Crystal Structure Of The Helicase Domai... 158 1e-037
gb|AAD41902.1|AF159357_1 (AF159357) DNA primase [Enterobact... 106 6e-022
gb|AAA84746.1| (U23502) POM1 [Plasmodium chabaudi chabaudi] 80 5e-014
ref|NP_068602.1| (NM_021830) twinkle [Homo sapiens] >gi|104... 69 1e-010
gb|AAF52820.1| (AE003626) CG5924 gene product [Drosophila m... 57 6e-007
ref|NP_391924.1| (NC_000964) replicative DNA helicase [Baci... 54 3e-006
ref|NP_214015.1| (NC_000918) replicative DNA helicase [Aqui... 54 5e-006
ref|NP_078388.1| (NC_002162) replicative DNA helicase [Urea... 52 1e-005
ref|NP_439720.1| (NC_000907) replicative DNA helicase (dnaB... 47 3e-004
gb|AAD25755.1|AC007060_13 (AC007060) T5I8.13 [Arabidopsis t... 45 0.001
>ref|NP_570328.1| (NC_003390) RP primase/helicase [Cyanophage P60]
gb|AAL73266.1| (AF338467) RP primase/helicase [Cyanophage P60]
Length = 531
Score = 929 bits (2401), Expect = 0.0
Identities = 465/477 (97%), Positives = 465/477 (97%)
Query: 1 MIPLEGDFHRIPSRNLTEETCRKFNVRVNDGRIQFPYYDNSRQLVGYKHRGKEKDFRWQG 60
MIPLEGDFHRIPSRNLTEETCRKFNVRVNDGRIQFPYYDNSRQLVGYKHRGKEKDFRWQG
Sbjct: 55 MIPLEGDFHRIPSRNLTEETCRKFNVRVNDGRIQFPYYDNSRQLVGYKHRGKEKDFRWQG 114
Query: 61 KNPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARKNWPVVSVPNGXXXXXXXXXXXXTY 120
KNPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARKNWPVVSVPNG TY
Sbjct: 115 KNPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARKNWPVVSVPNGAQSAKKALAAQLTY 174
Query: 121 LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI 180
LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI
Sbjct: 175 LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI 234
Query: 181 WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPFAALNSTTGGLRLGELVTITAGSGTGK 240
WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPFAALNSTTGGLRLGELVTITAGSGTGK
Sbjct: 235 WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPFAALNSTTGGLRLGELVTITAGSGTGK 294
Query: 241 STLCGEIAVSLINQDQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELRTAFDS 300
STLCGEIAVSLINQDQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELRTAFDS
Sbjct: 295 STLCGEIAVSLINQDQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELRTAFDS 354
Query: 301 TLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSILLSGNESTDERKMIDI 360
TLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSILLSGNESTDERKMIDI
Sbjct: 355 TLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSILLSGNESTDERKMIDI 414
Query: 361 VMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGSHSIAQLSDLVIALER 420
VMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGSHSIAQLSDLVIALER
Sbjct: 415 VMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGSHSIAQLSDLVIALER 474
Query: 421 DISKGDNRSQLRVLKNRFNGQTGPAGGLSYSVETGRMIEALDFEDDKPTAPTDYGDF 477
DISKGDNRSQLRVLKNRFNGQTGPAGGLSYSVETGRMIEALDFEDDKPTAPTDYGDF
Sbjct: 475 DISKGDNRSQLRVLKNRFNGQTGPAGGLSYSVETGRMIEALDFEDDKPTAPTDYGDF 531
>ref|NP_064752.1| (NC_002519) RPprimase/helicase [Roseophage SIO1]
gb|AAG02597.1|AF189021_16 (AF189021) Roseophage SIO1 complete genome
Length = 522
Score = 305 bits (781), Expect = 7e-082
Identities = 184/467 (39%), Positives = 279/467 (59%), Gaps = 19/467 (4%)
Query: 3 PLEGDFHRIPSRNLTEETCRKFNVRVNDGRIQFPYYDNSRQLVGYKHRG-KEKDFRWQGK 61
P+ G +PSR L + T K+ +D +I Y ++ +K RG EK F++ G
Sbjct: 58 PIRGKIMAVPSRGLNKATAEKYRALTSDDKISL-LYTTEGKVTSFKERGLSEKTFKFNGP 116
Query: 62 NPDNQLFGQQLWGKG-KAIVVTEGEFDALSVFQAR-KNWPVVSVPNGXXXXXXXXXXXXT 119
LFGQ + KG K++ +TEGEFDA++ +Q + P VSV NG
Sbjct: 117 -AQTDLFGQSAFSKGGKSVTITEGEFDAMAAYQMLYMSEPCVSVINGSSGAVKDCKRNYE 175
Query: 120 YLLNFEEIILMFDNDDAGIQAAEECVSLFPADRV--FTAFIDGYKDASEAVSAKDY-DAV 176
+L +FE+I + FDND AG AA LF +V T ++ D + +D+ DA
Sbjct: 176 WLDSFEKINIAFDNDKAGQDAAMAVAELFDPRKVRLVTMTLNDPNDYIKQGRERDFIDAH 235
Query: 177 TQAIWNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPFAALNSTTGGLRLGELVTITAGS 236
+A + +TP II G +L+D+V+TP YPF+ LN T GLR GEL+T AG+
Sbjct: 236 KKA----APFTPDGIIAGSSLYDLVSTPPEYDCVPYPFSGLNRMTKGLRTGELITFVAGT 291
Query: 237 GTGKSTLCGEIAVSLINQDQ-RVGYIALEESVKRTGLRLMTVAANKPLHLNNELPT-DEL 294
G GK+ + EI SLI QD+ VG + LEE V+ TGL +M++ A KPLHL + + T +E
Sbjct: 292 GVGKTQVMREILYSLIQQDKGNVGTLFLEEPVRDTGLGMMSIQAEKPLHLTDTIYTKEEF 351
Query: 295 RTAFDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSILLSGNESTDE 354
A+++TLGTGRVFL D FGS + +++ +R+L ++ + ++I+LDH+SI++S + + DE
Sbjct: 352 DNAYENTLGTGRVFLYDSFGSNSVERIVSMVRYLARSCDCKFIILDHISIVVS-DHAKDE 410
Query: 355 RKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGSHSIAQLSDL 414
RK +D + TKL++ E I ++++SHL R++ K E+G ++L +RG+ I QLS++
Sbjct: 411 RKALDEIATKLKTLTVELDICLLMVSHLNRDKNRKPPEEGGTINLQDIRGTAGIGQLSNI 470
Query: 415 VIALERDISKGD----NRSQLRVLKNRFNGQTGPAGGLSYSVETGRM 457
+IALER+ D N +++RV+KNRF G+TG A LSYS TGR+
Sbjct: 471 IIALERNTQADDELERNTTRVRVIKNRFTGETGVADSLSYSRHTGRL 517
>ref|NP_052087.1| (NC_001271) DNA primase/helicase [Bacteriophage phiYeO3-12]
emb|CAB63608.1| (AJ251805) DNA primase/helicase [Bacteriophage phiYeO3-12]
Length = 566
Score = 266 bits (681), Expect = 3e-070
Identities = 173/472 (36%), Positives = 261/472 (54%), Gaps = 29/472 (6%)
Query: 6 GDFHRIPSRNLTEETCRKFN---VRVNDGRIQFP-YYDNSRQLVGYKHRGKEKDFRWQGK 61
G + + +R +++ETC+K +V++ Q Y D + +V K R K+K+F+ G
Sbjct: 75 GRYSDLTARGISKETCQKAGYWLAKVDNRMYQVADYRDQNGSIVSQKVRDKDKNFKTTGS 134
Query: 62 NPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARK-NWPVVSVPNGXXXXXXXXXXXXTY 120
+ + LF + LW GK IVVTEGE DAL+V + + +PVVS+ +G Y
Sbjct: 135 HKSDALFLKHLWSGGKKIVVTEGEIDALTVMELQDCKYPVVSLGHGASAAKKTCAANYEY 194
Query: 121 LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI 180
FE+IILMFD DDAG +A EE + PA +V A + YKDA+E + A+ + +
Sbjct: 195 FDQFEQIILMFDMDDAGRKAVEEAAQVLPAGKVRVAVLP-YKDANECHIMGEDKAILEQV 253
Query: 181 WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPF----AALNSTTGGLRLGELVTITAGS 236
WN + + P ++ +L D V + DA LN T G R GE++ +T+GS
Sbjct: 254 WNANPWVPDGVVSALSLKDRVKEAMTSEDAVGLLFDGCQGLNDRTLGARGGEVIMVTSGS 313
Query: 237 GTGKSTLCGEIAVSLINQ-DQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELR 295
G GKST + A++ + +RVG LEESV+ T +M + N + L +DE++
Sbjct: 314 GMGKSTFVRQQALAWGKRMGKRVGLAMLEESVEDTIQDMMGL--NNKVRLRQ---SDEVK 368
Query: 296 TA----------FDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSIL 345
A +D G L D F + D LL + ++ IVLDH+SI+
Sbjct: 369 KAIAEDGRFDEWYDELFGDDTFHLYDSFAEAEADRLLAKLAYMRTGLGCDVIVLDHISIV 428
Query: 346 LSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGS 405
+S +E +DERKMID +MTKL+ F + TG+ +++I HL+ + K HE+G VS++ LRGS
Sbjct: 429 VSASEESDERKMIDRLMTKLKGFAKSTGVVLVVICHLKNPEKGKAHEEGRAVSITDLRGS 488
Query: 406 HSIAQLSDLVIALERDISKGD--NRSQLRVLKNRFNGQTGPAGGLSYSVETG 455
++ QLSD +IALER+ +GD + +R+LK RF G TG AG + Y+ ETG
Sbjct: 489 GALRQLSDTIIALERN-QQGDMPHLVLVRLLKCRFTGDTGIAGYMEYNRETG 539
>ref|NP_052088.1| (NC_001271) helicase [Bacteriophage phiYeO3-12]
emb|CAB63609.1| (AJ251805) helicase [Bacteriophage phiYeO3-12]
Length = 504
Score = 266 bits (681), Expect = 3e-070
Identities = 173/472 (36%), Positives = 261/472 (54%), Gaps = 29/472 (6%)
Query: 6 GDFHRIPSRNLTEETCRKFN---VRVNDGRIQFP-YYDNSRQLVGYKHRGKEKDFRWQGK 61
G + + +R +++ETC+K +V++ Q Y D + +V K R K+K+F+ G
Sbjct: 13 GRYSDLTARGISKETCQKAGYWLAKVDNRMYQVADYRDQNGSIVSQKVRDKDKNFKTTGS 72
Query: 62 NPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARK-NWPVVSVPNGXXXXXXXXXXXXTY 120
+ + LF + LW GK IVVTEGE DAL+V + + +PVVS+ +G Y
Sbjct: 73 HKSDALFLKHLWSGGKKIVVTEGEIDALTVMELQDCKYPVVSLGHGASAAKKTCAANYEY 132
Query: 121 LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI 180
FE+IILMFD DDAG +A EE + PA +V A + YKDA+E + A+ + +
Sbjct: 133 FDQFEQIILMFDMDDAGRKAVEEAAQVLPAGKVRVAVLP-YKDANECHIMGEDKAILEQV 191
Query: 181 WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPF----AALNSTTGGLRLGELVTITAGS 236
WN + + P ++ +L D V + DA LN T G R GE++ +T+GS
Sbjct: 192 WNANPWVPDGVVSALSLKDRVKEAMTSEDAVGLLFDGCQGLNDRTLGARGGEVIMVTSGS 251
Query: 237 GTGKSTLCGEIAVSLINQ-DQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELR 295
G GKST + A++ + +RVG LEESV+ T +M + N + L +DE++
Sbjct: 252 GMGKSTFVRQQALAWGKRMGKRVGLAMLEESVEDTIQDMMGL--NNKVRLRQ---SDEVK 306
Query: 296 TA----------FDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSIL 345
A +D G L D F + D LL + ++ IVLDH+SI+
Sbjct: 307 KAIAEDGRFDEWYDELFGDDTFHLYDSFAEAEADRLLAKLAYMRTGLGCDVIVLDHISIV 366
Query: 346 LSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGS 405
+S +E +DERKMID +MTKL+ F + TG+ +++I HL+ + K HE+G VS++ LRGS
Sbjct: 367 VSASEESDERKMIDRLMTKLKGFAKSTGVVLVVICHLKNPEKGKAHEEGRAVSITDLRGS 426
Query: 406 HSIAQLSDLVIALERDISKGD--NRSQLRVLKNRFNGQTGPAGGLSYSVETG 455
++ QLSD +IALER+ +GD + +R+LK RF G TG AG + Y+ ETG
Sbjct: 427 GALRQLSDTIIALERN-QQGDMPHLVLVRLLKCRFTGDTGIAGYMEYNRETG 477
>ref|NP_523315.1| (NC_003298) DNA primase/helicase [Bacteriophage T3]
sp|P20315|PRIM_BPT3 DNA PRIMASE/HELICASE
pir||S07508 DNA primase - phage T3
emb|CAA35135.1| (X17255) 4A [Bacteriophage T3]
emb|CAC86278.1| (AJ318471) DNA primase/helicase [Bacteriophage T3]
Length = 566
Score = 265 bits (678), Expect = 6e-070
Identities = 174/472 (36%), Positives = 260/472 (54%), Gaps = 29/472 (6%)
Query: 6 GDFHRIPSRNLTEETCRKFN---VRVNDGRIQFP-YYDNSRQLVGYKHRGKEKDFRWQGK 61
G + + +R +++ETC+K +V++ Q Y D + +V K R K+K+F+ G
Sbjct: 75 GRYSDLTARGISKETCQKAGYWLAKVDNRMYQVADYRDQNGSIVSQKVRDKDKNFKTTGS 134
Query: 62 NPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARK-NWPVVSVPNGXXXXXXXXXXXXTY 120
+ + LF + LW GK IVVTEGE DAL+V + + +PVVS+ +G Y
Sbjct: 135 HKSDALFLKHLWSGGKKIVVTEGEIDALTVMELQDCKYPVVSLGHGASAAKKTCAANYEY 194
Query: 121 LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI 180
FE+IILMFD DDAG +A EE + PA +V A + KDA+E + A+ + +
Sbjct: 195 FDQFEQIILMFDMDDAGRKAVEEAAQVLPAGKVRVAVLP-CKDANECHIMGEDKAILEQV 253
Query: 181 WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPF----AALNSTTGGLRLGELVTITAGS 236
WN + + P ++ +L D V + DA LN T G R GE+V +T+GS
Sbjct: 254 WNANPWVPDGVVSALSLKDRVKEAMTSEDAVGLLFDGCQGLNDRTLGARGGEVVMVTSGS 313
Query: 237 GTGKSTLCGEIAVSLINQ-DQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELR 295
G GKST + A++ + +RVG LEESV+ T +M + N + L +DE++
Sbjct: 314 GMGKSTFVRQQALAWGKRMGKRVGLAMLEESVEDTIQDMMGL--NNKVRLRQ---SDEVK 368
Query: 296 TA----------FDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSIL 345
A +D G L D F + D LL + ++ IVLDH+SI+
Sbjct: 369 KAIAEDGRFDEWYDELFGDDTFHLYDSFAEAEADRLLAKLAYMRTGLGCDVIVLDHISIV 428
Query: 346 LSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGS 405
+S +E +DERKMID +MTKL+ F + TG+ +++I HL+ + K HE+G VS++ LRGS
Sbjct: 429 VSASEESDERKMIDRLMTKLKGFAKSTGVVLVVICHLKNPEKGKAHEEGRAVSITDLRGS 488
Query: 406 HSIAQLSDLVIALERDISKGD--NRSQLRVLKNRFNGQTGPAGGLSYSVETG 455
++ QLSD +IALER+ +GD N +R+LK RF G TG AG + Y+ ETG
Sbjct: 489 GALRQLSDTIIALERN-QQGDMPNLVLVRLLKCRFTGDTGIAGYMEYNRETG 539
>ref|NP_523316.1| (NC_003298) helicase [Bacteriophage T3]
emb|CAA35136.1| (X17255) 4B [Bacteriophage T3]
emb|CAC86279.1| (AJ318471) helicase [Bacteriophage T3]
Length = 504
Score = 265 bits (678), Expect = 6e-070
Identities = 174/472 (36%), Positives = 260/472 (54%), Gaps = 29/472 (6%)
Query: 6 GDFHRIPSRNLTEETCRKFN---VRVNDGRIQFP-YYDNSRQLVGYKHRGKEKDFRWQGK 61
G + + +R +++ETC+K +V++ Q Y D + +V K R K+K+F+ G
Sbjct: 13 GRYSDLTARGISKETCQKAGYWLAKVDNRMYQVADYRDQNGSIVSQKVRDKDKNFKTTGS 72
Query: 62 NPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARK-NWPVVSVPNGXXXXXXXXXXXXTY 120
+ + LF + LW GK IVVTEGE DAL+V + + +PVVS+ +G Y
Sbjct: 73 HKSDALFLKHLWSGGKKIVVTEGEIDALTVMELQDCKYPVVSLGHGASAAKKTCAANYEY 132
Query: 121 LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI 180
FE+IILMFD DDAG +A EE + PA +V A + KDA+E + A+ + +
Sbjct: 133 FDQFEQIILMFDMDDAGRKAVEEAAQVLPAGKVRVAVLP-CKDANECHIMGEDKAILEQV 191
Query: 181 WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPF----AALNSTTGGLRLGELVTITAGS 236
WN + + P ++ +L D V + DA LN T G R GE+V +T+GS
Sbjct: 192 WNANPWVPDGVVSALSLKDRVKEAMTSEDAVGLLFDGCQGLNDRTLGARGGEVVMVTSGS 251
Query: 237 GTGKSTLCGEIAVSLINQ-DQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELR 295
G GKST + A++ + +RVG LEESV+ T +M + N + L +DE++
Sbjct: 252 GMGKSTFVRQQALAWGKRMGKRVGLAMLEESVEDTIQDMMGL--NNKVRLRQ---SDEVK 306
Query: 296 TA----------FDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSIL 345
A +D G L D F + D LL + ++ IVLDH+SI+
Sbjct: 307 KAIAEDGRFDEWYDELFGDDTFHLYDSFAEAEADRLLAKLAYMRTGLGCDVIVLDHISIV 366
Query: 346 LSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGS 405
+S +E +DERKMID +MTKL+ F + TG+ +++I HL+ + K HE+G VS++ LRGS
Sbjct: 367 VSASEESDERKMIDRLMTKLKGFAKSTGVVLVVICHLKNPEKGKAHEEGRAVSITDLRGS 426
Query: 406 HSIAQLSDLVIALERDISKGD--NRSQLRVLKNRFNGQTGPAGGLSYSVETG 455
++ QLSD +IALER+ +GD N +R+LK RF G TG AG + Y+ ETG
Sbjct: 427 GALRQLSDTIIALERN-QQGDMPNLVLVRLLKCRFTGDTGIAGYMEYNRETG 477
>ref|NP_041977.1| (NC_001604) gene 4B/helicase [14,15] [Enterobacteria phage T7]
emb|CAA24407.1| (V01146) gene 4B/helicase [14,15] [Enterobacteria phage T7]
Length = 503
Score = 256 bits (654), Expect = 4e-067
Identities = 165/489 (33%), Positives = 259/489 (52%), Gaps = 20/489 (4%)
Query: 6 GDFHRIPSRNLTEETCRKFN---VRVNDGRIQFP-YYDNSRQLVGYKHRGKEKDFRWQGK 61
G + + +R +++ETC+K +V+ Q Y D + +V K R K+K+F+ G
Sbjct: 13 GRYSALTARGISKETCQKAGYWIAKVDGVMYQVADYRDQNGNIVSQKVRDKDKNFKTTGS 72
Query: 62 NPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARK-NWPVVSVPNGXXXXXXXXXXXXTY 120
+ + LFG+ LW GK IVVTEGE D L+V + + +PVVS+ +G Y
Sbjct: 73 HKSDALFGKHLWNGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAKKTCAANYEY 132
Query: 121 LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI 180
FE+IILMFD D+AG +A EE + PA +V A + KDA+E + + +
Sbjct: 133 FDQFEQIILMFDMDEAGRKAVEEAAQVLPAGKVRVAVLP-CKDANECHLNGHDREIMEQV 191
Query: 181 WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPF----AALNSTTGGLRLGELVTITAGS 236
WN + P ++ +L + + L ++ +N T G R GE++ +T+GS
Sbjct: 192 WNAGPWIPDGVVSALSLRERIREHLSSEESVGLLFSGCTGINDKTLGARGGEVIMVTSGS 251
Query: 237 GTGKSTLCGEIAVSL-INQDQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELR 295
G GKST + A+ ++VG LEESV+ T L+ + L ++ L + +
Sbjct: 252 GMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIE 311
Query: 296 TA-----FDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSILLSGNE 350
FD G L D F + D LL + ++ I+LDH+SI++S +
Sbjct: 312 NGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASG 371
Query: 351 STDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGSHSIAQ 410
+DERKMID +MTKL+ F + TG+ +++I HL+ K HE+G VS++ LRGS ++ Q
Sbjct: 372 ESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQ 431
Query: 411 LSDLVIALERDISKGD--NRSQLRVLKNRFNGQTGPAGGLSYSVETGRM-IEALDFEDDK 467
LSD +IALER+ +GD N +R+LK RF G TG AG + Y+ ETG + + E++
Sbjct: 432 LSDTIIALERN-QQGDMPNLVLVRILKCRFTGDTGIAGYMEYNKETGWLEPSSYSGEEES 490
Query: 468 PTAPTDYGD 476
+ TD+ +
Sbjct: 491 HSESTDWSN 499
>ref|NP_041975.1| (NC_001604) gene 4A, primase/helicase [14,15] [Enterobacteria phage
T7]
sp|P03692|PRIM_BPT7 DNA PRIMASE/HELICASE
pir||YDBPA7 DNA primase - phage T7
emb|CAA24405.1| (V01146) gene 4A, primase/helicase [14,15] [Enterobacteria phage
T7]
Length = 566
Score = 256 bits (654), Expect = 4e-067
Identities = 165/489 (33%), Positives = 259/489 (52%), Gaps = 20/489 (4%)
Query: 6 GDFHRIPSRNLTEETCRKFN---VRVNDGRIQFP-YYDNSRQLVGYKHRGKEKDFRWQGK 61
G + + +R +++ETC+K +V+ Q Y D + +V K R K+K+F+ G
Sbjct: 76 GRYSALTARGISKETCQKAGYWIAKVDGVMYQVADYRDQNGNIVSQKVRDKDKNFKTTGS 135
Query: 62 NPDNQLFGQQLWGKGKAIVVTEGEFDALSVFQARK-NWPVVSVPNGXXXXXXXXXXXXTY 120
+ + LFG+ LW GK IVVTEGE D L+V + + +PVVS+ +G Y
Sbjct: 136 HKSDALFGKHLWNGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAKKTCAANYEY 195
Query: 121 LLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAI 180
FE+IILMFD D+AG +A EE + PA +V A + KDA+E + + +
Sbjct: 196 FDQFEQIILMFDMDEAGRKAVEEAAQVLPAGKVRVAVLP-CKDANECHLNGHDREIMEQV 254
Query: 181 WNKSTYTPKSIIDGRTLFDVVTTPLHGRDAEYPF----AALNSTTGGLRLGELVTITAGS 236
WN + P ++ +L + + L ++ +N T G R GE++ +T+GS
Sbjct: 255 WNAGPWIPDGVVSALSLRERIREHLSSEESVGLLFSGCTGINDKTLGARGGEVIMVTSGS 314
Query: 237 GTGKSTLCGEIAVSL-INQDQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELR 295
G GKST + A+ ++VG LEESV+ T L+ + L ++ L + +
Sbjct: 315 GMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIE 374
Query: 296 TA-----FDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSILLSGNE 350
FD G L D F + D LL + ++ I+LDH+SI++S +
Sbjct: 375 NGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASG 434
Query: 351 STDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGSHSIAQ 410
+DERKMID +MTKL+ F + TG+ +++I HL+ K HE+G VS++ LRGS ++ Q
Sbjct: 435 ESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQ 494
Query: 411 LSDLVIALERDISKGD--NRSQLRVLKNRFNGQTGPAGGLSYSVETGRM-IEALDFEDDK 467
LSD +IALER+ +GD N +R+LK RF G TG AG + Y+ ETG + + E++
Sbjct: 495 LSDTIIALERN-QQGDMPNLVLVRILKCRFTGDTGIAGYMEYNKETGWLEPSSYSGEEES 553
Query: 468 PTAPTDYGD 476
+ TD+ +
Sbjct: 554 HSESTDWSN 562
>pdb|1CR1|A Chain A, Crystal Structure Of The Helicase Domain Of The Gene 4
Protein Of Bacteriophage T7: Complex With Dttp
pdb|1CR4|A Chain A, Crystal Structure Of The Helicase Domain Of The Gene 4
Protein Of Bacteriophage T7: Complex With Dtdp
pdb|1CR2|A Chain A, Crystal Structure Of The Helicase Domain Of The Gene 4
Protein Of Bacteriophage T7: Complex With Datp
pdb|1CR0|A Chain A, Crystal Structure Of The Helicase Domain Of The Gene4
Protein Of Bacteriophage T7
Length = 296
Score = 158 bits (399), Expect = 1e-037
Identities = 98/269 (36%), Positives = 151/269 (55%), Gaps = 10/269 (3%)
Query: 217 LNSTTGGLRLGELVTITAGSGTGKSTLCGEIAVSL-INQDQRVGYIALEESVKRTGLRLM 275
+N T G R GE++ +T+GSG GKST + A+ ++VG LEESV+ T L+
Sbjct: 25 INDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLI 84
Query: 276 TVAANKPLHLNNELPTDELRTA-----FDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTK 330
+ L ++ L + + FD G L D F + D LL + ++
Sbjct: 85 GLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRS 144
Query: 331 AHEVQWIVLDHLSILLSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKG 390
I+LDH+SI++S + +DERKMID +MTKL+ F + TG+ +++I HL+ K
Sbjct: 145 GLGCDVIILDHISIVVSASGESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKA 204
Query: 391 HEDGAQVSLSQLRGSHSIAQLSDLVIALERDISKGD--NRSQLRVLKNRFNGQTGPAGGL 448
HE+G VS++ LRGS ++ QLSD +IALER+ +GD N +R+LK RF G TG AG +
Sbjct: 205 HEEGRPVSITDLRGSGALRQLSDTIIALERN-QQGDMPNLVLVRILKCRFTGDTGIAGYM 263
Query: 449 SYSVETGRM-IEALDFEDDKPTAPTDYGD 476
Y+ ETG + + E++ + TD+ +
Sbjct: 264 EYNKETGWLEPSSYSGEEESHSESTDWSN 292
>gb|AAD41902.1|AF159357_1 (AF159357) DNA primase [Enterobacteria phage SP6]
Length = 661
Score = 106 bits (264), Expect = 6e-022
Identities = 127/500 (25%), Positives = 216/500 (42%), Gaps = 58/500 (11%)
Query: 13 SRNLTEETCRKFNVRVN---DGRIQFPYYDNSR--QLVGYKHRGKEKDFRWQ--GKNPDN 65
SR++ + C ++VRV +G++ YY +LVG K R KDF++ GK N
Sbjct: 132 SRHIRGDICALYDVRVGHDGEGKVNRHYYPRFEGGKLVGAKCRTLPKDFKFGHLGKLFGN 191
Query: 66 Q-LFGQQLWG----KGK---AIVVTEGEFDALSVFQARKN-----------WPVVSVPNG 106
Q +FG KG+ +++ GE DAL+ Q + + V S+ G
Sbjct: 192 QDMFGMNTMSNVLDKGRRKDTLLIVGGELDALAAQQMLLDSAKGTKWEGQPYHVWSINKG 251
Query: 107 XXXXXXXXXXXXTYLLNFEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASE 166
++ F++I+ FD D+ G + ++ LFP + G KDA++
Sbjct: 252 EACLEEIVQNRE-HISQFKKIMWGFDGDEIGQKLNQQAARLFPGKSYIIEYPAGCKDANK 310
Query: 167 AVSAKDYDAVTQAIWNKSTYTP------KSIIDGRTLFDVVTTPLHGRDAEYPFAALNST 220
A+ A A +N + KSI R D + +P+ LN
Sbjct: 311 ALMAGKSKEFVDAWFNAKSSDEVFGSQIKSIASQR---DKLKAARPEPGLSWPWPRLNKI 367
Query: 221 TGGLRLGELVTITAGSGTGKSTLCGEIAVSLINQ-DQRVGYIALEESVKRTGLRLMTVAA 279
T G+R +L+ + AGSG GK+ E+ LI + + VG I+ E+ + + +
Sbjct: 368 TLGIRKHQLIIVGAGSGVGKTEFLREVVKHLIEEHGESVGIISTEDPMVKVSRAFIGKWI 427
Query: 280 NKPLHL--NNELPTDELRTAFDST-----------LGTGRVFLRDGFGSVDPDSLLNDIR 326
+K + L N+ D R FD T TG++F+ D G + +
Sbjct: 428 DKRIELPPTNDPREDGYREVFDYTEEEANAAIDYVADTGKLFVADLEGDYSMEK-VEQTC 486
Query: 327 FLTKAHEVQWIVLDHLS-ILLSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLRRN 385
+A + I++D+L+ I L + +D + ++ + + + + L+SHL R
Sbjct: 487 LEFEAMGISNIIIDNLTGIKLDERNFGGKVGALDECVKRIGTIKDRHPVTIFLVSHLTRP 546
Query: 386 QGDK-GHEDGAQVSLSQLRGSHSIAQLSDLVIALERDISKG--DNR--SQLRVLKNRFNG 440
G + HE+G +V LS RGS +I + + +ER+ D R + + +K+R G
Sbjct: 547 SGQRTSHEEGGEVILSDFRGSGAIGFWASYALGIERNTRAETLDERTTTYISCVKDRDQG 606
Query: 441 -QTGPAGGLSYSVETGRMIE 459
TG L V TGR++E
Sbjct: 607 IYTGTKVMLKGDVSTGRLME 626
>gb|AAA84746.1| (U23502) POM1 [Plasmodium chabaudi chabaudi]
Length = 597
Score = 80.1 bits (196), Expect = 5e-014
Identities = 66/229 (28%), Positives = 111/229 (47%), Gaps = 13/229 (5%)
Query: 216 ALNSTTGGLRLGELVTITAGSGTGKSTLCGEIAVSLINQDQRVGYIALEESVKRTGLRLM 275
+LN GLR+GEL T +G GK+TL ++++ Q G L S + ++L
Sbjct: 137 SLNKFLYGLRMGELSIWTGSTGVGKTTLLSQLSLDYCIQ----GVSTLWGSFEINNIKLA 192
Query: 276 TVAANKPLHLNNELPTDELRTAFDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQ 335
V N+ N E D D FL+ GS + D +L+ + + A++V+
Sbjct: 193 KVMLNQFCGKNLEKNIDLFDLYADKFELLPLKFLKF-HGSTNIDQVLDAMDYAVYAYDVK 251
Query: 336 WIVLDHLSILLSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGA 395
I++D+L +L+ N+ +D ++ +I + K RSF + + L+ H R+ ED
Sbjct: 252 HIIIDNLQFMLNINKFSDIYELQNIAIDKFRSFSTNKNVHITLVVHPRK-------EDNN 304
Query: 396 QVSLSQLRGSHSIAQLSDLVIALERDISKGDNR-SQLRVLKNRFNGQTG 443
+S+S + GS Q +D V ++R ISK + + + KNRF G G
Sbjct: 305 LLSISSVFGSVKSTQEADNVFIIQRQISKNNEAVFFIDIKKNRFKGSLG 353
>ref|NP_068602.1| (NM_021830) twinkle [Homo sapiens]
dbj|BAB15148.1| (AK025485) unnamed protein product [Homo sapiens]
Length = 506
Score = 68.6 bits (166), Expect = 1e-010
Identities = 87/388 (22%), Positives = 159/388 (40%), Gaps = 26/388 (6%)
Query: 65 NQLFGQQLWGKGKA-IVVTEGEFDALSVFQARKNWPVVSVPNGXXXXXXXXXXXXTYLLN 123
+ LFG L + A +V+T E D+L++ Q+ P +++P G YL
Sbjct: 67 HNLFGLPLISRRDAEVVLTSRELDSLALNQST-GLPTLTLPRGTTCLPPALL---PYLEQ 122
Query: 124 FEEIILMFDNDDAGIQAAEECVSLFPADRVFTAFIDGYKDASEAVSAKDYDAVTQAIWNK 183
F I+ +D +AA+ R F G + + +++ +
Sbjct: 123 FRRIVFWLGDDLRSWEAAKLFARKLNPKRCFLVR-PGDQQPRPLEALNGGFNLSRILRTA 181
Query: 184 STYTPKSIIDGRTLFDVVTTPLHGRDAEYP-----FAALNSTTGGLRLGELVTITAGSGT 238
KSI+ R L + V L + F LN G R GEL T +G+
Sbjct: 182 LPAWHKSIVSFRQLREEVLGELSNVEQAAGLRWSRFPDLNRILKGHRKGELTVFTGPTGS 241
Query: 239 GKSTLCGEIAVSLINQDQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPT-DELRTA 297
GK+T E A+ L +Q + + E S R ++T A L ++L D
Sbjct: 242 GKTTFISEYALDLCSQGVNTLWGSFEISNVRLARVMLTQFAEG--RLEDQLDKYDHWADR 299
Query: 298 FDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSILLSGNE-STDERK 356
F+ ++ G ++++ ++ +++ +++D+L ++ + STD
Sbjct: 300 FEDL----PLYFMTFHGQQSIRTVIDTMQHAVYVYDICHVIIDNLQFMMGHEQLSTDRIA 355
Query: 357 MIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGSHSIAQLSDLVI 416
D ++ R F + + L+ H R+ DK ++ + + GS +Q +D V+
Sbjct: 356 AQDYIIGVFRKFATDNNCHVTLVIHPRKEDDDK------ELQTASIFGSAKASQEADNVL 409
Query: 417 AL-ERDISKGDNRSQLRVLKNRFNGQTG 443
L +R + G + L+V KNRF+G G
Sbjct: 410 ILQDRKLVTGPGKRYLQVSKNRFDGDVG 437
>gb|AAF52820.1| (AE003626) CG5924 gene product [Drosophila melanogaster]
Length = 613
Score = 56.6 bits (135), Expect = 6e-007
Identities = 56/252 (22%), Positives = 106/252 (41%), Gaps = 27/252 (10%)
Query: 214 FAALNSTTGGLRLGELVTITAGSGTGKSTLCGEIAVSLINQDQRVGYIALEESVKRTGLR 273
F LN G R GEL +T +G+GK+T E ++ L Q + + E R
Sbjct: 362 FPVLNKLLKGHRRGELTILTGPTGSGKTTFMSEYSLDLAMQGVNTLWGSFEIRNTRLAAT 421
Query: 274 LMTVAANKP----LHLNNELPTDELRTAFDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLT 329
L+ P LH N + R ++ G +L I +
Sbjct: 422 LLRQYVGYPLDDRLHEFNHWAAEFERLP---------LYFMTFHGQQPLKPVLEAIEHAS 472
Query: 330 KAHEVQWIVLDHLSILLSGNESTDERKM-IDIVMTKLRSFVEETGIGMILISHLRRNQGD 388
H+V +++D+L ++ + ++ D ++ RSF + + + L+ H R+ +
Sbjct: 473 YVHDVMHVIIDNLQFMMGVSTFRGDKFFEQDSIIAAFRSFATKHNVHVTLVMHPRKER-- 530
Query: 389 KGHEDGAQVSLSQLRGSHSIAQLSDLVIAL-ERDISKGDNRSQLRVLKNRFNGQTG---- 443
ED +++ S + G+ Q +D V+ + ++ ++ + L++ KNR++G G
Sbjct: 531 --QED--ELTTSSVFGTAKATQEADNVLIIQDKRLTSVRGKKYLQIAKNRYSGDLGIMPL 586
Query: 444 --PAGGLSYSVE 453
GLSYS +
Sbjct: 587 EFDKDGLSYSTQ 598
>ref|NP_391924.1| (NC_000964) replicative DNA helicase [Bacillus subtilis]
sp|P37469|DNAC_BACSU Replicative DNA helicase
pir||S65970 replicative DNA helicase dnaC - Bacillus subtilis
dbj|BAA05176.1| (D26185) replicative DNA helicase [Bacillus subtilis]
emb|CAB16081.1| (Z99124) replicative DNA helicase [Bacillus subtilis]
Length = 454
Score = 54.3 bits (129), Expect = 3e-006
Identities = 60/248 (24%), Positives = 112/248 (44%), Gaps = 21/248 (8%)
Query: 214 FAALNSTTGGLRLGELVTITAGSGTGKSTLCGEIAVSLINQ-DQRVGYIALEESVKRTGL 272
F L+ T G + +L+ + A GK+ IA ++ + D+ V +LE ++ +
Sbjct: 190 FTELDRMTAGFQRNDLIIVAARPSVGKTAFALNIAQNVATKTDESVAIFSLEMGAEQLVM 249
Query: 273 RLMTVAAN---KPLHLNNELPTD--ELRTAFDSTLGTGRVFLRDGFGSVDPDSLLNDIRF 327
R++ N + L N D +L A S +G +++ D G + + R
Sbjct: 250 RMLCAEGNINAQNLRTGNLTEEDWGKLTMAMGSLSNSG-IYIDDTPG-IRVSEIRAKCRR 307
Query: 328 LTKAHEVQWIVLDHLSILLSGNESTDERKM-IDIVMTKLRSFVEETGIGMILISHLRRNQ 386
L + + I++D+L ++ S D R+ + + +L+S E + +I +S L R
Sbjct: 308 LKQESGLGMILIDYLQLIQGSGRSKDNRQQEVSEISRELKSIARELQVPVIALSQLSR-- 365
Query: 387 GDKGHEDGAQVSLSQLRGSHSIAQLSDLVIALERD-----ISKGDNRSQLRVLKNRFNGQ 441
G + +D + +S +R S SI Q +D+V L RD ++ N ++ + K R
Sbjct: 366 GVEQRQD-KRPMMSDIRESGSIEQDADIVAFLYRDDYYDKETENKNIIEIIIAKQR---- 420
Query: 442 TGPAGGLS 449
GP G +S
Sbjct: 421 NGPVGTVS 428
>ref|NP_214015.1| (NC_000918) replicative DNA helicase [Aquifex aeolicus]
pir||H70427 replicative DNA helicase - Aquifex aeolicus
gb|AAC07414.1| (AE000742) replicative DNA helicase [Aquifex aeolicus]
Length = 468
Score = 53.5 bits (127), Expect = 5e-006
Identities = 48/212 (22%), Positives = 99/212 (46%), Gaps = 9/212 (4%)
Query: 214 FAALNSTTGGLRLGELVTITAGSGTGKSTLCGEIAVSLINQDQRVGYI-ALEESVKRTGL 272
F L+ T G G+L+ + A G GK+ I +L + + + +LE S ++ +
Sbjct: 186 FTELDLKTTGFHPGDLIILAARPGMGKTAFMLSIIYNLAKDEGKPSAVFSLEMSKEQLVM 245
Query: 273 RLMTVAANKPLHL--NNELPTDELRTAFDSTLGTGR--VFLRDGFGSVDPDSLLNDIRFL 328
RL+++ + PL + + ++L+ S + + ++L D D + R L
Sbjct: 246 RLLSMMSEVPLFKIRSGSISNEDLKKLEASAIELAKYDIYLDDTPALTTTDLRIR-ARKL 304
Query: 329 TKAHEVQWIVLDHLSILLSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLRRNQGD 388
K EV+++ +D+L +L + ++ + V L++ +E I ++ ++ L R
Sbjct: 305 RKEKEVEFVAVDYLQLLRPPVRKSSRQEEVAEVSRNLKALAKELHIPVMALAQLSREVEK 364
Query: 389 KGHEDGAQVSLSQLRGSHSIAQLSDLVIALER 420
+ + + L+ LR S I Q +DL++ L R
Sbjct: 365 RSDK---RPQLADLRESGQIEQDADLILFLHR 393
>ref|NP_078388.1| (NC_002162) replicative DNA helicase [Ureaplasma urealyticum]
pir||A82878 replicative DNA helicase UU550 [imported] - Ureaplasma urealyticum
gb|AAF30963.1|AE002153_11 (AE002153) replicative DNA helicase [Ureaplasma urealyticum]
Length = 486
Score = 52.4 bits (124), Expect = 1e-005
Identities = 65/281 (23%), Positives = 120/281 (42%), Gaps = 59/281 (20%)
Query: 217 LNSTTGGLRLGELVTITAGSGTGKSTLCGEIAVSLINQ-------------DQRVGYIAL 263
++ T G + GELV I A G GK+T C + V+ +N+ ++ + +L
Sbjct: 190 IDKFTNGYKPGELVVIAARPGIGKTTFCLNVMVNNVNEIIEYNENIQPNQKEKIIVMFSL 249
Query: 264 EESVK---------RTGLRLMTVAANKPLHLNNELPTDELRTAFDSTLGTGRVFLRD--G 312
E + + +TG+ V NK + T + + + +F+ D
Sbjct: 250 EITKEQILQKFISIKTGISNREVIENK-YRITKGYDTRSFAMQAINDIKSWPIFIDDRPN 308
Query: 313 FGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSILLSGNESTDERKMIDI--VMTKLRSFVE 370
VD ++ L D++ K +++ +VLD+L ++ GN + + + ++ V + L+ +
Sbjct: 309 ISIVDIEAKLYDLK---KRYDIALVVLDYLQLVSGGNANKNMTRTQEVGRVSSALKIIAK 365
Query: 371 ETGIGMILISHLRRNQGDKGHEDGAQV-------------SLSQLRGSHSIAQLSDLVIA 417
E +I I+ L R ++ + + LS LR S SI Q +D+V
Sbjct: 366 EINAPVIAIAQLSRKAEERDVSNNVNMKNNPLVKTIDNSPKLSDLRESGSIEQDADVVAF 425
Query: 418 L-----ERDISKGDNR----------SQLRVLKNRFNGQTG 443
L +R+ + DN+ ++ V KNR NG TG
Sbjct: 426 LHWDRKQRNFMQNDNQETRMRDDLIEAKFIVEKNR-NGSTG 465
>ref|NP_439720.1| (NC_000907) replicative DNA helicase (dnaB) [Haemophilus influenzae
Rd]
pir||D64130 dnaB protein - Haemophilus influenzae (strain Rd KW20)
gb|AAC23217.1| (U32831) replicative DNA helicase (dnaB) [Haemophilus influenzae
Rd]
Length = 504
Score = 47.4 bits (111), Expect = 3e-004
Identities = 58/269 (21%), Positives = 113/269 (41%), Gaps = 22/269 (8%)
Query: 214 FAALNSTTGGLRLGELVTITAGSGTGKST----LCGEIAVSLINQDQRVGYIALEESVKR 269
F L+ T GL+ +L+ + A GK+T LC A++ ++ V +LE ++
Sbjct: 241 FTDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMA---SEKPVLVFSLEMPAEQ 297
Query: 270 TGLRLMTVAAN------KPLHLNNELPTDELRTAFDSTLGTGRVFLRDGFGSVDPDSLLN 323
+R++ A + +E+ +++ + +F+ D G D
Sbjct: 298 IMMRMIASLARVDQTKIRTGQNLDEIEWNKIASVVGMFKQKNNLFIDDSSGLTPTDVRSR 357
Query: 324 DIRFLTKAHEVQWIVLDHLSILLSGNESTDERKMIDIVMTKLRSFVEETGIGMILISHLR 383
R + + I++D+L ++ + S + I + L++ +E + ++ +S L
Sbjct: 358 ARRVYRENGGLSMIMVDYLQLMRAPAFSDNRTLEIAEISRSLKALAKELQVPVVALSQLN 417
Query: 384 RNQGDKGHEDGAQVSLSQLRGSHSIAQLSDLVIALERDISKGDNRSQLRVLKNRFNGQ-T 442
R +G + S LR S SI Q +DL++ + RD DN V + Q
Sbjct: 418 RTLEQRGDKRPVN---SDLRESGSIEQDADLIMFIYRDEVYNDNSEDKGVAEIIIGKQRN 474
Query: 443 GPAG--GLSYSVETGR---MIEALDFEDD 466
GP G L ++ + R + E ++ DD
Sbjct: 475 GPIGRVRLKFNGQFSRFDNLAEQREYRDD 503
>gb|AAD25755.1|AC007060_13 (AC007060) T5I8.13 [Arabidopsis thaliana]
Length = 670
Score = 45.4 bits (106), Expect = 0.001
Identities = 86/405 (21%), Positives = 158/405 (38%), Gaps = 30/405 (7%)
Query: 67 LFGQQLWGKGKAIVVTEGEFDALSVFQARKNWPVVSVPNGXXXXXXXXXXXXTYLLNFEE 126
L+G K +++ EGE D L++ +A VSVP+G +
Sbjct: 260 LYGLDDIEKTSEVIIVEGEIDKLAMEEAGF-LNCVSVPDGAPAKVSSKEIPSEDKAS--R 316
Query: 127 IILMFDNDDAGIQAAEECVSLFPADRVFT------AFIDGYKDASEAVSAKDYDAVTQAI 180
I++ D D G AEE +R + + + +KDA+E + +K + +AI
Sbjct: 317 IVIATDGDGPGQAMAEEIARRLGKERCWRVKWPKKSEDEHFKDANEVLMSKGPHLLKEAI 376
Query: 181 WNKSTYTPKSIIDGRTLFDVVTT---PLHGRDAEYPFAALN-STTGGLRLGELVTITAGS 236
+ Y + + FD + HG + N + GEL +T
Sbjct: 377 LDAEPYPILGLFSFKDFFDEIDAYYDRTHGHEYGVSTGWKNLDNLYSVVPGELTVVTGIP 436
Query: 237 GTGKSTLCGEIAVSLINQDQRVGYIALEESVKRTGLRLMTVAANKPLHLNNELPTDELRT 296
+GKS I L N + VG+ S++ + V + + + DE +
Sbjct: 437 NSGKSEW---IDAMLCNLNHSVGWKFALCSMENKPIAGALVIYGRSVQRMSVEEKDEGKK 493
Query: 297 AFDSTLGTGRVFLRDGFGSVDPDSLLNDIRFLTKAHEVQWIVLDHLSIL-LSGNESTDER 355
+ T R + D S+ D +L + + ++ +V+D + L E
Sbjct: 494 WLNDTFYPIRCEM-DSLPSI--DWVLERAKAAVLRYGIRGLVIDPYNELDHQRTPRQTET 550
Query: 356 KMIDIVMTKLRSFVEETGIGMILISHLRRNQGDKGHEDGAQVSLSQLRGSHSIAQLSD-- 413
+ + ++TK++ F + + ++H ++ Q H DG +L + GS D
Sbjct: 551 EYVSQMLTKIKRFSQHHSCHVWFVAHPKQLQ----HWDGGAPNLYDISGSAHFINKCDNG 606
Query: 414 LVIALERDISKGD---NRSQLRVLKNRFNGQTGPAGGLSYSVETG 455
+++ RD + G + +R ++N+ GQ G A L Y TG
Sbjct: 607 IIVHRNRDENAGPLDLVQIGVRKVRNKVAGQIGDA-YLCYDRTTG 650
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.318 0.137 1.22e+285
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 271,899,630
Number of Sequences: 922426
Number of extensions: 11399303
Number of successful extensions: 30015
Number of sequences better than 5.0e-02: 112
Number of HSP's better than 0.1 without gapping: 24
Number of HSP's successfully gapped in prelim test: 88
Number of HSP's that attempted gapping in prelim test: 29912
Number of HSP's gapped (non-prelim): 124
length of query: 477
length of database: 289,484,438
effective HSP length: 124
effective length of query: 353
effective length of database: 175,103,614
effective search space: 61811575742
effective search space used: 61811575742
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 93 (40.4 bits)
Query= orf23 [4573-4661]
(87 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570329.1| (NC_003390) thioredoxin C3 [Cyanophage P60... 179 5e-045
>ref|NP_570329.1| (NC_003390) thioredoxin C3 [Cyanophage P60]
gb|AAL73267.1| (AF338467) thioredoxin C3 [Cyanophage P60]
Length = 87
Score = 179 bits (454), Expect = 5e-045
Identities = 87/87 (100%), Positives = 87/87 (100%)
Query: 1 MATFKLTLFTKRDCGPCKRVKNYLRTHNYLDKVNILEKENHPALVSAFDLDVYPTLVVSN 60
MATFKLTLFTKRDCGPCKRVKNYLRTHNYLDKVNILEKENHPALVSAFDLDVYPTLVVSN
Sbjct: 1 MATFKLTLFTKRDCGPCKRVKNYLRTHNYLDKVNILEKENHPALVSAFDLDVYPTLVVSN 60
Query: 61 GTQMIRKYEGSNLVLINLPDEIYEASL 87
GTQMIRKYEGSNLVLINLPDEIYEASL
Sbjct: 61 GTQMIRKYEGSNLVLINLPDEIYEASL 87
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.320 0.138 2.27e+006
Gapped
Lambda K H
0.267 0.0410 3.37e+030
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 48,490,265
Number of Sequences: 922426
Number of extensions: 1644210
Number of successful extensions: 3751
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3750
Number of HSP's gapped (non-prelim): 1
length of query: 87
length of database: 289,484,438
effective HSP length: 63
effective length of query: 24
effective length of database: 231,371,600
effective search space: 5552918400
effective search space used: 5552918400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 84 (37.0 bits)
Query= orf24 [4655-5243]
(587 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570330.1| (NC_003390) DNA polymerase [Cyanophage P60... 1187 0.0
ref|NP_052093.1| (NC_001271) DNA polymerase [Bacteriophage ... 300 2e-080
ref|NP_523320.1| (NC_003298) DNA polymerase [Bacteriophage ... 297 2e-079
ref|NP_041982.1| (NC_001604) gene 5, DNA polymerase [Entero... 296 5e-079
pdb|1T7P|A Chain A, T7 Dna Polymerase Complexed To Dna Prim... 284 2e-075
ref|NP_052094.1| (NC_001271) 5B protein [Bacteriophage phiY... 216 5e-055
ref|NP_523322.1| (NC_003298) gene 5B protein [Bacteriophage... 212 1e-053
ref|NP_064753.1| (NC_002519) RP DNA pol [Roseophage SIO1] >... 202 1e-050
gb|AAG43102.1|AF038542_1 (AF038542) DNA polymerase I [Pseud... 84 6e-015
pdb|2KFN|A Chain A, Klenow Fragment With Bridging-Sulfur Su... 81 3e-014
pdb|1D8Y|A Chain A, Crystal Structure Of The Complex Of Dna... 81 3e-014
ref|NP_418300.1| (NC_000913) DNA polymerase I, 3' --> 5' po... 81 3e-014
ref|NP_290488.1| (NC_002655) DNA polymerase I, 3' --> 5' po... 81 3e-014
ref|NP_458049.1| (NC_003198) DNA polymerase I [Salmonella e... 81 4e-014
ref|NP_281529.1| (NC_002163) DNA polymerase I [Campylobacte... 78 2e-013
ref|NP_214348.1| (NC_000918) DNA polymerase I (PolI) [Aquif... 66 1e-009
ref|NP_295430.1| (NC_001263) DNA-directed DNA polymerase [D... 62 2e-008
ref|NP_188690.1| (NM_112946) DNA polymerase, putative [Arab... 55 2e-006
pdb|4KTQ|A Chain A, Binary Complex Of The Large Fragment Of... 55 2e-006
>ref|NP_570330.1| (NC_003390) DNA polymerase [Cyanophage P60]
gb|AAL73268.1| (AF338467) DNA polymerase [Cyanophage P60]
Length = 587
Score = 1187 bits (3071), Expect = 0.0
Identities = 575/587 (97%), Positives = 575/587 (97%)
Query: 1 MKLAFDIETDGLIPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLELLSKADELWGH 60
MKLAFDIETDGLIPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLELLSKADELWGH
Sbjct: 1 MKLAFDIETDGLIPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLELLSKADELWGH 60
Query: 61 NIVNYDYPAIQKLHPDWTPPSCTRDTLILSRLFFTDLLDRDFRSRPALMPGNLYGRHSLE 120
NIVNYDYPAIQKLHPDWTPPSCTRDTLILSRLFFTDLLDRDFRSRPALMPGNLYGRHSLE
Sbjct: 61 NIVNYDYPAIQKLHPDWTPPSCTRDTLILSRLFFTDLLDRDFRSRPALMPGNLYGRHSLE 120
Query: 121 AWGHRLGHHKSEFGKSLEGDWSTYSPEMLEYCARDVEVSVALAKTFVPKIPEYQWSVDTE 180
AWGHRLGHHKSEFGKSLEGDWSTYSPEMLEYCARDVEVSVALAKTFVPKIPEYQWSVDTE
Sbjct: 121 AWGHRLGHHKSEFGKSLEGDWSTYSPEMLEYCARDVEVSVALAKTFVPKIPEYQWSVDTE 180
Query: 181 HEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRETFHFVDGGVMTPKRSNKV 240
HEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRETFHFVDGGVMTPKRSNKV
Sbjct: 181 HEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRETFHFVDGGVMTPKRSNKV 240
Query: 241 RHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQPKIDDEILREINTKESL 300
RHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQPKIDDEILREINTKESL
Sbjct: 241 RHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQPKIDDEILREINTKESL 300
Query: 301 AFARILELQKHLGQLSEGKNAWLKLERKGRLHHSCVLNTNTGRQAHMRPNLAQVPSAHEY 360
AFARILELQKHLGQLSEGKNAWLKLERKGRLHHSCVLNTNTGRQAHMRPNLAQVPSAHEY
Sbjct: 301 AFARILELQKHLGQLSEGKNAWLKLERKGRLHHSCVLNTNTGRQAHMRPNLAQVPSAHEY 360
Query: 361 RSLFKPSDNHLQVGSDASGLELRCLGHYLSRYDGGKFAEEVVNGDIHTALAEIYGTDRKS 420
RSLFKPSDNHLQVGSDASGLELRCLGHYLSRYDGGKFAEEVVNGDIHTALAEIYGTDRKS
Sbjct: 361 RSLFKPSDNHLQVGSDASGLELRCLGHYLSRYDGGKFAEEVVNGDIHTALAEIYGTDRKS 420
Query: 421 GKGVTYCLIYGGGNHKLGLTXXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAKSG 480
GKGVTYCLIYGGGNHKLGLT QEIRGKIMQGLSGFADLNAAIQERAKSG
Sbjct: 421 GKGVTYCLIYGGGNHKLGLTAGASKSSASRKGQEIRGKIMQGLSGFADLNAAIQERAKSG 480
Query: 481 VLKGLDGRPIRLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQ 540
VLKGLDGRPIRLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQ
Sbjct: 481 VLKGLDGRPIRLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQ 540
Query: 541 QLSVRADQAEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
QLSVRADQAEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH
Sbjct: 541 QLSVRADQAEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
>ref|NP_052093.1| (NC_001271) DNA polymerase [Bacteriophage phiYeO3-12]
emb|CAB63614.1| (AJ251805) DNA polymerase [Bacteriophage phiYeO3-12]
Length = 704
Score = 300 bits (769), Expect = 2e-080
Identities = 231/716 (32%), Positives = 346/716 (48%), Gaps = 144/716 (20%)
Query: 3 LAFDIETDGLIPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLEL-LSKADELWGHN 61
L DIE + L+ +T HC V D D E+ GD+ + + LE + + + HN
Sbjct: 2 LVSDIEANNLLEKVTKFHCGVIYDY-RDGEYHSYRPGDFGAYLDALEAEVKRGGLIVFHN 60
Query: 62 IVNYDYPAIQKL-----HPDWTPP--SCTRDTLILSRLFFTDLLDRDFRS-RPALMPGNL 113
YD PA++KL + D+ P +C DTL+LSRL +L D D R +PG
Sbjct: 61 GHKYDVPALEKLAKLQLNRDFKLPRENCI-DTLVLSRLLHANLKDTDMGLLRSGKLPGRR 119
Query: 114 YGRHSLEAWGHRLGHHKSEFGKSLEG-------------DWSTYSPEMLEYCARDVEVSV 160
+G H+LEAWG+RLG K E+ + +W +++ M+ Y +DV V+V
Sbjct: 120 FGSHALEAWGYRLGEMKGEYKDDFKAMLEEQGEEYVDGAEWVSFNEPMMAYNVQDVVVTV 179
Query: 161 ALAKTFVPKIPEYQ-------------W-----SVDTEHEIARIMSWQEQMGFPFDVRAA 202
L + F+ + + W SVD EH A +++ QE+ GFPF+ +A
Sbjct: 180 KLLEKFLTDLHYFPAGMDFTKYDADLFWREAGESVDIEHRAAWLLAKQERNGFPFNTQAI 239
Query: 203 QALEGKLRLELDTLSDDMRETF-----------------------------HFVDGGVMT 233
+ L +L + L + ETF + GGV
Sbjct: 240 EELYVELAAKRAELLRKLTETFGSWYQPKGGKELFKHPRTGKPLPSYPRVVYPKQGGVYK 299
Query: 234 PKRSNK-----------VRHYFENAPFCKLR--EFNPTSRHHIAWAFEHHRGWEPKERTA 280
R+ R Y E AP+ + F P+SR HI + GW P++ T
Sbjct: 300 KPRNKAQREGLEPCDLDTRDYMEGAPYTPVEFVTFKPSSRDHIQKKLQE-AGWVPEKFTE 358
Query: 281 GGQPKIDDEILREINTKESLAFARI------LELQKHLGQLSEGKNAWLK-LERKGRLHH 333
G P +DDE+L + + A I L +QK +GQ +EG AWL+ ++ G++H
Sbjct: 359 KGAPVVDDEVLEHVRVDDPEKQACIDLIKEYLMIQKRIGQAAEGDKAWLRYVQDDGKIHG 418
Query: 334 SCVLNTN---TGRQAHMRPNLAQVPSAH-----EYRSLFKPSDNHL---------QVGSD 376
+ +N N TGR H PNLAQVP + RS F +++HL Q G D
Sbjct: 419 A--VNPNGAVTGRATHSFPNLAQVPGVRSPYGEQCRSAFG-AEHHLDGITGKPWVQAGID 475
Query: 377 ASGLELRCLGHYLSRYDGGKFAEEVVNGDIHTA---LAEIYGTDRKSGKGVTYCLIYGGG 433
ASGLELRCL H+++R+D G++A E++NGDIHT AE+ R + K Y +YG G
Sbjct: 476 ASGLELRCLAHFMARFDNGEYANEILNGDIHTKNQNAAEL--PTRDNAKTFIYGFLYGAG 533
Query: 434 NHKLGLTXXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQE---------------RAK 478
+ K+G +E++ K ++ A L AIQ+ + K
Sbjct: 534 DEKIG----QIVGAGKERGKELKKKFLENTPAIAALREAIQQSLVNSSAWIGGEQKVQWK 589
Query: 479 SGVLKGLDGRPIRLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGI------DYYP 532
+KGLDGR + ++ HAALN LLQSAGA+ICKLW+I+T E+L E G+ D+
Sbjct: 590 RRWIKGLDGRKVHVRSP-HAALNTLLQSAGALICKLWIIKTEEMLIEKGLKHGWDGDFAQ 648
Query: 533 LAFVHDEQQLSVRADQ-AEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
+ ++HDE Q++ R ++ A++ ++ AM+ V FRC LD+E +IG +WA CH
Sbjct: 649 MGWIHDEVQIACRTEEVAKVVVEVAQEAMRWVGEHWNFRCRLDTEGKIGPNWAVCH 704
>ref|NP_523320.1| (NC_003298) DNA polymerase [Bacteriophage T3]
sp|P20311|DPOL_BPT3 DNA POLYMERASE
pir||S07512 DNA-directed DNA polymerase (EC 2.7.7.7) - phage T3
emb|CAA35140.1| (X17255) 5 [Bacteriophage T3]
emb|CAC86283.1| (AJ318471) DNA polymerase [Bacteriophage T3]
Length = 704
Score = 297 bits (760), Expect = 2e-079
Identities = 234/715 (32%), Positives = 344/715 (47%), Gaps = 142/715 (19%)
Query: 3 LAFDIETDGLIPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLEL-LSKADELWGHN 61
L DIE + L+ +T HC V D D E+ GD+ + + LE + + + HN
Sbjct: 2 LVSDIEANNLLEKVTKFHCGVIYDY-RDGEYHSYRPGDFGAYLDALEAEVKRGGLIVFHN 60
Query: 62 IVNYDYPAIQKL------HPDWTPPSCTRDTLILSRLFFTDLLDRDFRS-RPALMPGNLY 114
YD PA+ KL P DTL+LSRL ++L D D R +PG +
Sbjct: 61 GHKYDVPALTKLAKLQLNREFHLPRENCIDTLVLSRLIHSNLKDTDMGLLRSGKLPGKRF 120
Query: 115 GRHSLEAWGHRLGH----HKSEFGKSLEG---------DWSTYSPEMLEYCARDVEVSVA 161
G H+LEAWG+RLG +K +F + LE +W ++ EM++Y +DV V+ A
Sbjct: 121 GSHALEAWGYRLGEMKGEYKDDFKRMLEEQGEEYVDGMEWWNFNEEMMDYNVQDVVVTKA 180
Query: 162 LAKT-------FVPKIPEYQ------WS-----VDTEHEIARIMSWQEQMGFPFDVRAAQ 203
L + F P+I WS VD EH A +++ QE+ GFPFD +A +
Sbjct: 181 LLEKLLSDKHYFPPEIDFTDVGYTTFWSESLEAVDVEHRAAWLLAKQERNGFPFDTKAIE 240
Query: 204 ALEGKLRLELDTLSDDMRETF--------------HFVDG--------------GVMTPK 235
L +L L ++ ETF H G G + K
Sbjct: 241 ELYVELAARRSELLRNLTETFGSWYQPKGGTEMFCHPRTGKPLPKYPRIKIPKVGGIFKK 300
Query: 236 RSNKV------------RHYFENAPFCKLRE--FNPTSRHHIAWAFEHHRGWEPKERTAG 281
NK R Y AP+ + FNP+SR HI + GW P + T
Sbjct: 301 PKNKAQREGREPCELDTREYVAGAPYTPVEHVVFNPSSRDHIQKKLQE-AGWVPTKFTDK 359
Query: 282 GQPKIDDEILREINTKESLAFARI------LELQKHLGQLSEGKNAWLK-LERKGRLHHS 334
G P +DDE+L + + A I L +QK +GQ +EG AWL+ + G++H S
Sbjct: 360 GAPVVDDEVLEGVRVDDPEKQAAIDLIKEYLMIQKRIGQSAEGDKAWLRYVAEDGKIHGS 419
Query: 335 CVLNTN---TGRQAHMRPNLAQVPSAH-----EYRSLFKPSDNHL---------QVGSDA 377
+N N TGR H PNLAQ+P + R+ F +++HL Q G DA
Sbjct: 420 --VNPNGAVTGRATHAFPNLAQIPGVRSPYGEQCRAAFG-AEHHLDGITGKPWVQAGIDA 476
Query: 378 SGLELRCLGHYLSRYDGGKFAEEVVNGDIHT---ALAEIYGTDRKSGKGVTYCLIYGGGN 434
SGLELRCL H+++R+D G++A E++NGDIHT AE+ R + K Y +YG G+
Sbjct: 477 SGLELRCLAHFMARFDNGEYAHEILNGDIHTKNQMAAEL--PTRDNAKTFIYGFLYGAGD 534
Query: 435 HKLGLTXXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQE---------------RAKS 479
K+G +E++ K ++ A L +IQ+ + K
Sbjct: 535 EKIG----QIVGAGKERGKELKKKFLENTPAIAALRESIQQTLVESSQWVAGEQQVKWKR 590
Query: 480 GVLKGLDGRPIRLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGI------DYYPL 533
+KGLDGR + ++ HAALN LLQSAGA+ICKLW+I+T E+L E G+ D+ +
Sbjct: 591 RWIKGLDGRKVHVRSP-HAALNTLLQSAGALICKLWIIKTEEMLVEKGLKHGWDGDFAYM 649
Query: 534 AFVHDEQQLSVRADQ-AEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
A++HDE Q++ R ++ A+ ++ AM+ V FRC LD+E ++G +W +CH
Sbjct: 650 AWIHDEIQVACRTEEIAKTVIEVAQEAMRWVGEHWNFRCLLDTEGKMGANWKECH 704
>ref|NP_041982.1| (NC_001604) gene 5, DNA polymerase [Enterobacteria phage T7]
sp|P00581|DPOL_BPT7 DNA POLYMERASE (T7 DNA POLYMERASE)
pir||DJBPT7 DNA-directed DNA polymerase (EC 2.7.7.7) phage chain - phage T7
emb|CAA24412.1| (V01146) gene 5, DNA polymerase [Enterobacteria phage T7]
Length = 704
Score = 296 bits (757), Expect = 5e-079
Identities = 235/712 (33%), Positives = 344/712 (48%), Gaps = 142/712 (19%)
Query: 6 DIETDGLIPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLEL-LSKADELWGHNIVN 64
DIE + L+ +T HC V D T E + + D+ + + LE +++ + HN
Sbjct: 5 DIEANALLESVTKFHCGVIYDYSTAEYVSYRPS-DFGAYLDALEAEVARGGLIVFHNGHK 63
Query: 65 YDYPAIQKL------HPDWTPPSCTRDTLILSRLFFTDLLDRDFRS-RPALMPGNLYGRH 117
YD PA+ KL P DTL+LSRL ++L D D R +PG +G H
Sbjct: 64 YDVPALTKLAKLQLNREFHLPRENCIDTLVLSRLIHSNLKDTDMGLLRSGKLPGKRFGSH 123
Query: 118 SLEAWGHRLGH----HKSEFGKSLEG---------DWSTYSPEMLEYCARDVEVSVALAK 164
+LEAWG+RLG +K +F + LE +W ++ EM++Y +DV V+ AL +
Sbjct: 124 ALEAWGYRLGEMKGEYKDDFKRMLEEQGEEYVDGMEWWNFNEEMMDYNVQDVVVTKALLE 183
Query: 165 T-------FVPKIPEYQ------WS-----VDTEHEIARIMSWQEQMGFPFDVRAAQALE 206
F P+I WS VD EH A +++ QE+ GFPFD +A + L
Sbjct: 184 KLLSDKHYFPPEIDFTDVGYTTFWSESLEAVDIEHRAAWLLAKQERNGFPFDTKAIEELY 243
Query: 207 GKLRLELDTLSDDMRETF---HFVDGG------------------VMTPK-------RSN 238
+L L + ETF + GG + TPK N
Sbjct: 244 VELAARRSELLRKLTETFGSWYQPKGGTEMFCHPRTGKPLPKYPRIKTPKVGGIFKKPKN 303
Query: 239 KV------------RHYFENAPFCKLRE--FNPTSRHHIAWAFEHHRGWEPKERTAGGQP 284
K R Y AP+ + FNP+SR HI + GW P + T G P
Sbjct: 304 KAQREGREPCELDTREYVAGAPYTPVEHVVFNPSSRDHIQKKLQE-AGWVPTKYTDKGAP 362
Query: 285 KIDDEILREINTKESLAFARI------LELQKHLGQLSEGKNAWLK-LERKGRLHHSCVL 337
+DDE+L + + A I L +QK +GQ +EG AWL+ + G++H S +
Sbjct: 363 VVDDEVLEGVRVDDPEKQAAIDLIKEYLMIQKRIGQSAEGDKAWLRYVAEDGKIHGS--V 420
Query: 338 NTN---TGRQAHMRPNLAQVPSAH-----EYRSLFKPSDNHL---------QVGSDASGL 380
N N TGR H PNLAQ+P + R+ F +++HL Q G DASGL
Sbjct: 421 NPNGAVTGRATHAFPNLAQIPGVRSPYGEQCRAAFG-AEHHLDGITGKPWVQAGIDASGL 479
Query: 381 ELRCLGHYLSRYDGGKFAEEVVNGDIHT---ALAEIYGTDRKSGKGVTYCLIYGGGNHKL 437
ELRCL H+++R+D G++A E++NGDIHT AE+ R + K Y +YG G+ K+
Sbjct: 480 ELRCLAHFMARFDNGEYAHEILNGDIHTKNQIAAEL--PTRDNAKTFIYGFLYGAGDEKI 537
Query: 438 GLTXXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQE---------------RAKSGVL 482
G +E++ K ++ A L +IQ+ + K +
Sbjct: 538 G----QIVGAGKERGKELKKKFLENTPAIAALRESIQQTLVESSQWVAGEQQVKWKRRWI 593
Query: 483 KGLDGRPIRLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGI------DYYPLAFV 536
KGLDGR + ++ HAALN LLQSAGA+ICKLW+I+T E+L E G+ D+ +A+V
Sbjct: 594 KGLDGRKVHVRSP-HAALNTLLQSAGALICKLWIIKTEEMLVEKGLKHGWDGDFAYMAWV 652
Query: 537 HDEQQLSVRADQ-AEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
HDE Q+ R ++ A++ + AM+ V FRC LD+E ++G +WA CH
Sbjct: 653 HDEIQVGCRTEEIAQVVIETAQEAMRWVGDHWNFRCLLDTEGKMGPNWAICH 704
>pdb|1T7P|A Chain A, T7 Dna Polymerase Complexed To Dna PrimerTEMPLATE,A
Nucleoside Triphosphate, And Its Processivity Factor
Thioredoxin
Length = 698
Score = 284 bits (727), Expect = 2e-075
Identities = 234/711 (32%), Positives = 341/711 (47%), Gaps = 146/711 (20%)
Query: 6 DIETDGLIPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLEL-LSKADELWGHNIVN 64
DIE + L+ +T HC V D T E + + D+ + + LE +++ + HN
Sbjct: 5 DIEANALLESVTKFHCGVIYDYSTAEYVSYRPS-DFGAYLDALEAEVARGGLIVFHNGHK 63
Query: 65 YDYPAIQKL------HPDWTPPSCTRDTLILSRLFFTDLLDRDFRSRPALMPGNLYGRHS 118
YD PA+ KL P DTL+LSRL ++L D D L G L G +
Sbjct: 64 YDVPALTKLAKLQLNREFHLPRENCIDTLVLSRLIHSNLKDTDMG---LLRSGKLPG--A 118
Query: 119 LEAWGHRLGH----HKSEFGKSLEG---------DWSTYSPEMLEYCARDVEVSVALAKT 165
LEAWG+RLG +K +F + LE +W ++ EM++Y +DV V+ AL +
Sbjct: 119 LEAWGYRLGEMKGEYKDDFKRMLEEQGEEYVDGMEWWNFNEEMMDYNVQDVVVTKALLEK 178
Query: 166 -------FVPKIPEYQ------WS-----VDTEHEIARIMSWQEQMGFPFDVRAAQALEG 207
F P+I WS VD EH A +++ QE+ GFPFD +A + L
Sbjct: 179 LLSDKHYFPPEIDFTDVGYTTFWSESLEAVDIEHRAAWLLAKQERNGFPFDTKAIEELYV 238
Query: 208 KLRLELDTLSDDMRETF---HFVDGG------------------VMTPK-------RSNK 239
+L L + ETF + GG + TPK NK
Sbjct: 239 ELAARRSELLRKLTETFGSWYQPKGGTEMFCHPRTGKPLPKYPRIKTPKVGGIFKKPKNK 298
Query: 240 V------------RHYFENAPFCKLRE--FNPTSRHHIAWAFEHHRGWEPKERTAGGQPK 285
R Y AP+ + FNP+SR HI + GW P + T G P
Sbjct: 299 AQREGREPCELDTREYVAGAPYTPVEHVVFNPSSRDHIQKKLQE-AGWVPTKYTDKGAPV 357
Query: 286 IDDEILREINTKESLAFARI------LELQKHLGQLSEGKNAWLK-LERKGRLHHSCVLN 338
+DDE+L + + A I L +QK +GQ +EG AWL+ + G++H S +N
Sbjct: 358 VDDEVLEGVRVDDPEKQAAIDLIKEYLMIQKRIGQSAEGDKAWLRYVAEDGKIHGS--VN 415
Query: 339 TN---TGRQAHMRPNLAQVPSAH-----EYRSLFKPSDNHL---------QVGSDASGLE 381
N TGR H PNLAQ+P + R+ F +++HL Q G DASGLE
Sbjct: 416 PNGAVTGRATHAFPNLAQIPGVRSPYGEQCRAAFG-AEHHLDGITGKPWVQAGIDASGLE 474
Query: 382 LRCLGHYLSRYDGGKFAEEVVNGDIHT---ALAEIYGTDRKSGKGVTYCLIYGGGNHKLG 438
LRCL H+++R+D G++A E++NGDIHT AE+ R + K Y +YG G+ K+G
Sbjct: 475 LRCLAHFMARFDNGEYAHEILNGDIHTKNQIAAEL--PTRDNAKTFIYGFLYGAGDEKIG 532
Query: 439 LTXXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQE---------------RAKSGVLK 483
+E++ K ++ A L +IQ+ + K +K
Sbjct: 533 ----QIVGAGKERGKELKKKFLENTPAIAALRESIQQTLVESSQWVAGEQQVKWKRRWIK 588
Query: 484 GLDGRPIRLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGI------DYYPLAFVH 537
GLDGR + ++ HAALN LLQSAGA+ICKLW+I+T E+L E G+ D+ +A+VH
Sbjct: 589 GLDGRKVHVRSP-HAALNTLLQSAGALICKLWIIKTEEMLVEKGLKHGWDGDFAYMAWVH 647
Query: 538 DEQQLSVRADQ-AEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
DE Q+ R ++ A++ + AM+ V FRC LD+E ++G +WA CH
Sbjct: 648 DEIQVGCRTEEIAQVVIETAQEAMRWVGDHWNFRCLLDTEGKMGPNWAICH 698
>ref|NP_052094.1| (NC_001271) 5B protein [Bacteriophage phiYeO3-12]
emb|CAB63615.1| (AJ251805) 5B protein [Bacteriophage phiYeO3-12]
Length = 384
Score = 216 bits (550), Expect = 5e-055
Identities = 144/394 (36%), Positives = 213/394 (53%), Gaps = 62/394 (15%)
Query: 245 ENAPFCKLR--EFNPTSRHHIAWAFEHHRGWEPKERTAGGQPKIDDEILREINTKESLAF 302
E AP+ + F P+SR HI + GW P++ T G P +DDE+L + +
Sbjct: 2 EGAPYTPVEFVTFKPSSRDHIQKKLQE-AGWVPEKFTEKGAPVVDDEVLEHVRVDDPEKQ 60
Query: 303 ARI------LELQKHLGQLSEGKNAWLK-LERKGRLHHSCVLNTN---TGRQAHMRPNLA 352
A I L +QK +GQ +EG AWL+ ++ G++H + +N N TGR H PNLA
Sbjct: 61 ACIDLIKEYLMIQKRIGQAAEGDKAWLRYVQDDGKIHGA--VNPNGAVTGRATHSFPNLA 118
Query: 353 QVPSAH-----EYRSLFKPSDNHL---------QVGSDASGLELRCLGHYLSRYDGGKFA 398
QVP + RS F +++HL Q G DASGLELRCL H+++R+D G++A
Sbjct: 119 QVPGVRSPYGEQCRSAFG-AEHHLDGITGKPWVQAGIDASGLELRCLAHFMARFDNGEYA 177
Query: 399 EEVVNGDIHTA---LAEIYGTDRKSGKGVTYCLIYGGGNHKLGLTXXXXXXXXXXXXQEI 455
E++NGDIHT AE+ R + K Y +YG G+ K+G +E+
Sbjct: 178 NEILNGDIHTKNQNAAEL--PTRDNAKTFIYGFLYGAGDEKIG----QIVGAGKERGKEL 231
Query: 456 RGKIMQGLSGFADLNAAIQE---------------RAKSGVLKGLDGRPIRLQGKNHAAL 500
+ K ++ A L AIQ+ + K +KGLDGR + ++ HAAL
Sbjct: 232 KKKFLENTPAIAALREAIQQSLVNSSAWIGGEQKVQWKRRWIKGLDGRKVHVRSP-HAAL 290
Query: 501 NYLLQSAGAIICKLWVIRTHELLQEAGI------DYYPLAFVHDEQQLSVRADQ-AEMAA 553
N LLQSAGA+ICKLW+I+T E+L E G+ D+ + ++HDE Q++ R ++ A++
Sbjct: 291 NTLLQSAGALICKLWIIKTEEMLIEKGLKHGWDGDFAQMGWIHDEVQIACRTEEVAKVVV 350
Query: 554 QLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
++ AM+ V FRC LD+E +IG +WA CH
Sbjct: 351 EVAQEAMRWVGEHWNFRCRLDTEGKIGPNWAVCH 384
>ref|NP_523322.1| (NC_003298) gene 5B protein [Bacteriophage T3]
emb|CAA35141.1| (X17255) 5B [Bacteriophage T3]
emb|CAC86285.1| (AJ318471) gene 5B protein [Bacteriophage T3]
Length = 372
Score = 212 bits (539), Expect = 1e-053
Identities = 139/382 (36%), Positives = 207/382 (53%), Gaps = 60/382 (15%)
Query: 255 FNPTSRHHIAWAFEHHRGWEPKERTAGGQPKIDDEILREINTKESLAFARI------LEL 308
FNP+SR HI + GW P + T G P +DDE+L + + A I L +
Sbjct: 2 FNPSSRDHIQKKLQE-AGWVPTKFTDKGAPVVDDEVLEGVRVDDPEKQAAIDLIKEYLMI 60
Query: 309 QKHLGQLSEGKNAWLK-LERKGRLHHSCVLNTN---TGRQAHMRPNLAQVPSAH-----E 359
QK +GQ +EG AWL+ + G++H S +N N TGR H PNLAQ+P +
Sbjct: 61 QKRIGQSAEGDKAWLRYVAEDGKIHGS--VNPNGAVTGRATHAFPNLAQIPGVRSPYGEQ 118
Query: 360 YRSLFKPSDNHL---------QVGSDASGLELRCLGHYLSRYDGGKFAEEVVNGDIHT-- 408
R+ F +++HL Q G DASGLELRCL H+++R+D G++A E++NGDIHT
Sbjct: 119 CRAAFG-AEHHLDGITGKPWVQAGIDASGLELRCLAHFMARFDNGEYAHEILNGDIHTKN 177
Query: 409 -ALAEIYGTDRKSGKGVTYCLIYGGGNHKLGLTXXXXXXXXXXXXQEIRGKIMQGLSGFA 467
AE+ R + K Y +YG G+ K+G +E++ K ++ A
Sbjct: 178 QMAAEL--PTRDNAKTFIYGFLYGAGDEKIG----QIVGAGKERGKELKKKFLENTPAIA 231
Query: 468 DLNAAIQE---------------RAKSGVLKGLDGRPIRLQGKNHAALNYLLQSAGAIIC 512
L +IQ+ + K +KGLDGR + ++ HAALN LLQSAGA+IC
Sbjct: 232 ALRESIQQTLVESSQWVAGEQQVKWKRRWIKGLDGRKVHVRSP-HAALNTLLQSAGALIC 290
Query: 513 KLWVIRTHELLQEAGI------DYYPLAFVHDEQQLSVRADQ-AEMAAQLTTLAMKDVEH 565
KLW+I+T E+L E G+ D+ +A++HDE Q++ R ++ A+ ++ AM+ V
Sbjct: 291 KLWIIKTEEMLVEKGLKHGWDGDFAYMAWIHDEIQVACRTEEIAKTVIEVAQEAMRWVGE 350
Query: 566 QVKFRCALDSEYQIGNSWADCH 587
FRC LD+E ++G +W +CH
Sbjct: 351 HWNFRCLLDTEGKMGANWKECH 372
>ref|NP_064753.1| (NC_002519) RP DNA pol [Roseophage SIO1]
gb|AAG02598.1|AF189021_17 (AF189021) Roseophage SIO1 complete genome
Length = 580
Score = 202 bits (513), Expect = 1e-050
Identities = 180/628 (28%), Positives = 277/628 (43%), Gaps = 89/628 (14%)
Query: 1 MKLAFDIETDGLIPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLELLSKADELW-G 59
M++ FDIETD L D T+IH +VA+ + + F D + K L+K LW G
Sbjct: 1 MEVVFDIETDAL--DATVIHVLVAKRVG---QKGFYVVRDAETFKR----LAKQVTLWIG 51
Query: 60 HNIVNYDYPAIQKLHPDWTPPSCTRDTLILSRLFFTDLLDRDFRSRPALMPGNLYGRHSL 119
HN++ +D P I+KL P DTL++SRL + G HSL
Sbjct: 52 HNVIGFDIPQIKKLWGYGIPLKDVADTLVMSRL----------------LDPTRKGGHSL 95
Query: 120 EAWGHRLGHHKSEFGKSLEGDWSTYSPEMLEYCARDVEVSVALAKTFVPKIPEY-QWSVD 178
+A G+ K +F D+STY+PEML YC +DV ++ + ++ + + S+
Sbjct: 96 DALS---GNEKIDFH-----DFSTYTPEMLAYCKQDVAINEKVYLQLKEELSNFGKASIQ 147
Query: 179 TEHEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRETFHFVDGGV--MTPKR 236
EH++ I+ QE+ GF D A+ + E + + +++E + V + KR
Sbjct: 148 LEHQMQAIVCEQEKNGFMLDTDIAEEIYTTCLRETNRIEAEIKEFMVPIAVPVKEVIIKR 207
Query: 237 SNKVRHYFEN--------APFCKL--REFNPTSRHHIAWAFEHHRGWEPKERTAGGQP-K 285
Y + K+ EFN S + + GW+P +T G K
Sbjct: 208 KKDGSIYSNQLLEGCNVQGDYTKIAWEEFNLGSPAQVNKRLDR-LGWKPTVKTKSGNSYK 266
Query: 286 IDDEILREI-----NTKESLAFARILELQKHLGQLSEGKNAWL-KLERKGRLHHSCVLN- 338
I E L I + L ++LE + L Q WL K + GR+H +L
Sbjct: 267 ICPENLATIPDTAPEAVKGLKAWKVLETRWKLAQ------EWLQKSQETGRVHGRVILTG 320
Query: 339 TNTGRQAHMRPNLAQVPSAH----------------EYRSLFKPSDNHLQVGSDASGLEL 382
T R AH PN+A +PS E R FK + L VG+DA+G++L
Sbjct: 321 AVTHRAAHQGPNMANIPSVPHGKDGILWKMEGMYGAECRQAFKVPEGKLLVGTDAAGIQL 380
Query: 383 RCLGHYLSRYDGGKFAEEVVNGDIHTALAEIYGT---DRKSGKGVTYCLIYGGGNHKLGL 439
R L HY++ + E+V++GDIHT E G DR + K Y + G G +
Sbjct: 381 RVLAHYMN---DPIYTEQVIDGDIHTFNKEALGRYCKDRPTAKTFIYAFLLGAGTGMIA- 436
Query: 440 TXXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAKSGVLKGLDGRPIRLQGKNHAA 499
E + + L + + A G +KGLDGR +R+ G +H A
Sbjct: 437 ---SILGCNNRQANEAMANFYEAIPSLKKLKSQASQAASMGWMKGLDGRVLRI-GSDHLA 492
Query: 500 LNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQAEMAAQLTTLA 559
L+ LQ +I +L + ++ GI++ A+VHDE Q V DQA+ ++ A
Sbjct: 493 LSVYLQGGETVIMRLANVFWQRQAKKEGINFKQCAWVHDEWQTEVDEDQAQRLGEIQVQA 552
Query: 560 MKDVEHQVKFRCALDSEYQIGNSWADCH 587
+KD K C +D E +IG +W + H
Sbjct: 553 IKDAGTFFKLNCPMDGEAKIGKNWLETH 580
>gb|AAG43102.1|AF038542_1 (AF038542) DNA polymerase I [Pseudomonas fluorescens]
Length = 939
Score = 83.6 bits (205), Expect = 6e-015
Identities = 102/399 (25%), Positives = 157/399 (38%), Gaps = 52/399 (13%)
Query: 226 FVDG---GVMTPKRSNKV----RHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKER 278
FVD G+ + + NK+ R FE A EFN S + G ++
Sbjct: 556 FVDADLLGIQSIELGNKMVALEREAFEIAG----EEFNLGSPKQLGVILYEKLGLPVLKK 611
Query: 279 TAGGQPKIDDEILREINTKESLAFARILELQKHLGQLSEGKNAWLKLE---RKGRLH--- 332
TA GQP +E+L ++ ++ ++L + + +L L + R GR+H
Sbjct: 612 TAKGQPSTAEEVLAKL-AEDDHRLPKVLMEHRSMSKLKSTYTDRLPEQINPRTGRIHTSY 670
Query: 333 HSCVLNTNTGRQAHMRPNLAQVP----SAHEYRSLFKPSDNHLQVGSDASGLELRCLGHY 388
H V +TGR + PNL +P R F + + +D S +ELR + H
Sbjct: 671 HQAV--ASTGRLSSSDPNLQNIPVRTAEGRRIRQAFVAPKGYKLLAADYSQIELRIMAH- 727
Query: 389 LSRYDGGKFAEEVVNGDIHTALA---------EIYGTDRKSGKGVTYCLIYGGGNHKLGL 439
LSR D G N D+HTA A E+ R+ K + + LIYG G KLG
Sbjct: 728 LSR-DEGLMNAFRNNLDVHTATAAEVFKVELNEVTSDQRRGAKAINFGLIYGMGAQKLGK 786
Query: 440 TXXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAKSGVLKGLDGRPIRLQGKN--- 496
+ G+ + D A + A G ++ + GR + L N
Sbjct: 787 DIGVDTKTAKAYIDTYFARY-PGVREYMDRTRA--QAADQGFVETIFGRRLYLPDINSNK 843
Query: 497 --------HAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQ 548
A+N +Q A I K ++ L +G+D + VHDE L VR D
Sbjct: 844 PQERAAAERTAINAPMQGTAADIIKKAMVAVDNWLCASGLDAKVILQVHDELVLEVREDL 903
Query: 549 AEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
+ + + M + K L E +GN+W + H
Sbjct: 904 VDQVREEIRVHMSEA---AKLDVPLLVEVGVGNNWDEAH 939
>pdb|2KFN|A Chain A, Klenow Fragment With Bridging-Sulfur Substrate And
Manganese
pdb|2KFZ|A Chain A, Klenow Fragment With Bridging-Sulfur Substrate And Zinc
Only
pdb|1KFS|A Chain A, All-Oxygen Dna Complexed To The 3'-5' Exonuclease Of Dna
Polymerase I From E. Coli
pdb|1D9D|A Chain A, Crystall Structure Of The Complex Of Dna Polymerase I
Klenow Fragment With Short Dna Fragment Carrying 2'-0-
Aminopropyl-Rna Modifications 5'-D(Tcg)-Ap(Auc)-3'
pdb|1KRP|A Chain A, Rp Isomer Phosphorothioate Dna Complexed To The 3'-5'
Exonuclease Of Dna Polymerase I From E. Coli
pdb|1QSL|A Chain A, Klenow Fragment Complexed With Single-Stranded Substrate
And Europium (Iii) Ion
pdb|2KZZ|A Chain A, Klenow Fragment With Normal Substrate And Zinc Only
pdb|1KSP|A Chain A, Sp Isomer Phosphorothioate Dna Complexed To The 3'-5'
Exonuclease Of Dna Polymerase I From E. Coli
pdb|2KZM|A Chain A, Klenow Fragment With Normal Substrate And Zinc And
Manganese
pdb|1D9F|A Chain A, Crystal Structure Of The Complex Of Dna Polymerase I
Klenow Fragment With Dna Tetramer Carrying
2'-O-(3-Aminopropyl)- Rna Modification
5'-D(Tt)-Ap(U)-D(T)-3'
Length = 605
Score = 81.3 bits (199), Expect = 3e-014
Identities = 121/515 (23%), Positives = 196/515 (37%), Gaps = 82/515 (15%)
Query: 115 GRHSLEAWGHRLGHHKSEFGKSLEGDWS---TYSPEMLE----YCARDVEVSVALAKTFV 167
GRH +++ R HK+ + + G T++ LE Y A D +V++ L
Sbjct: 131 GRHDMDSLAERWLKHKTITFEEIAGKGKNQLTFNQIALEEAGRYAAEDADVTLQLHLKMW 190
Query: 168 PKIPEYQWSVDT----EHEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRET 223
P + +++ ++ E + ++S E+ G D + +L L L ++ +
Sbjct: 191 PDLQKHKGPLNVFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLA----ELEKK 246
Query: 224 FHFVDGGVMTPKRSNKVRHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQ 283
H + G EFN +S + +G +P ++T GG
Sbjct: 247 AHEIAG-----------------------EEFNLSSTKQLQTILFEKQGIKPLKKTPGGA 283
Query: 284 PKIDDEILREINTKESLAFARILELQKHLGQLSEGKNAWLKL---ERKGRLH---HSCVL 337
P +E+L E+ L +++ + L +L L L + GR+H H V
Sbjct: 284 PSTSEEVLEELALDYPL--PKVILEYRGLAKLKSTYTDKLPLMINPKTGRVHTSYHQAV- 340
Query: 338 NTNTGRQAHMRPNLAQVPSAHE----YRSLFKPSDNHLQVGSDASGLELRCLGHYLSRYD 393
T TGR + PNL +P +E R F ++++ V +D S +ELR + H LSR D
Sbjct: 341 -TATGRLSSTDPNLQNIPVRNEEGRRIRQAFIAPEDYVIVSADYSQIELRIMAH-LSR-D 397
Query: 394 GGKFAEEVVNGDIHTA-LAEIYG--------TDRKSGKGVTYCLIYGGGNHKLGLTXXXX 444
G DIH A AE++G R+S K + + LIYG L
Sbjct: 398 KGLLTAFAEGKDIHRATAAEVFGLPLETVTSEQRRSAKAINFGLIYGMSAFGL----ARQ 453
Query: 445 XXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAK-SGVLKGLDGRPI-----------RL 492
Q+ + G + + +AK G ++ LDGR + R
Sbjct: 454 LNIPRKEAQKYMDLYFERYPGVLEYMERTRAQAKEQGYVETLDGRRLYLPDIKSSNGARR 513
Query: 493 QGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQAEMA 552
AA+N +Q A I K +I LQ + VHDE V D +
Sbjct: 514 AAAERAAINAPMQGTAADIIKRAMIAVDAWLQAEQPRVRMIMQVHDELVFEVHKDDVDAV 573
Query: 553 AQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
A+ M E+ + L E G +W H
Sbjct: 574 AKQIHQLM---ENCTRLDVPLLVEVGSGENWDQAH 605
>pdb|1D8Y|A Chain A, Crystal Structure Of The Complex Of Dna Polymerase I
Klenow Fragment With Dna
Length = 605
Score = 81.3 bits (199), Expect = 3e-014
Identities = 121/515 (23%), Positives = 196/515 (37%), Gaps = 82/515 (15%)
Query: 115 GRHSLEAWGHRLGHHKSEFGKSLEGDWS---TYSPEMLE----YCARDVEVSVALAKTFV 167
GRH +++ R HK+ + + G T++ LE Y A D +V++ L
Sbjct: 131 GRHDMDSLAERWLKHKTITFEEIAGKGKNQLTFNQIALEEAGRYAAEDADVTLQLHLKMW 190
Query: 168 PKIPEYQWSVDT----EHEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRET 223
P + +++ ++ E + ++S E+ G D + +L L L ++ +
Sbjct: 191 PDLQKHKGPLNVFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLA----ELEKK 246
Query: 224 FHFVDGGVMTPKRSNKVRHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQ 283
H + G EFN +S + +G +P ++T GG
Sbjct: 247 AHEIAG-----------------------EEFNLSSTKQLQTILFEKQGIKPLKKTPGGA 283
Query: 284 PKIDDEILREINTKESLAFARILELQKHLGQLSEGKNAWLKL---ERKGRLH---HSCVL 337
P +E+L E+ L +++ + L +L L L + GR+H H V
Sbjct: 284 PSTSEEVLEELALDYPL--PKVILEYRGLAKLKSTYTDKLPLMINPKTGRVHTSYHQAV- 340
Query: 338 NTNTGRQAHMRPNLAQVPSAHE----YRSLFKPSDNHLQVGSDASGLELRCLGHYLSRYD 393
T TGR + PNL +P +E R F ++++ V +D S +ELR + H LSR D
Sbjct: 341 -TATGRLSSTDPNLQNIPVRNEEGRRIRQAFIAPEDYVIVSADYSQIELRIMAH-LSR-D 397
Query: 394 GGKFAEEVVNGDIHTA-LAEIYG--------TDRKSGKGVTYCLIYGGGNHKLGLTXXXX 444
G DIH A AE++G R+S K + + LIYG L
Sbjct: 398 KGLLTAFAEGKDIHRATAAEVFGLPLETVTSEQRRSAKAINFGLIYGMSAFGL----ARQ 453
Query: 445 XXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAK-SGVLKGLDGRPI-----------RL 492
Q+ + G + + +AK G ++ LDGR + R
Sbjct: 454 LNIPRKEAQKYMDLYFERYPGVLEYMERTRAQAKEQGYVETLDGRRLYLPDIKSSNGARR 513
Query: 493 QGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQAEMA 552
AA+N +Q A I K +I LQ + VHDE V D +
Sbjct: 514 AAAERAAINAPMQGTAADIIKRAMIAVDAWLQAEQPRVRMIMQVHDELVFEVHKDDVDAV 573
Query: 553 AQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
A+ M E+ + L E G +W H
Sbjct: 574 AKQIHQLM---ENCTRLDVPLLVEVGSGENWDQAH 605
>ref|NP_418300.1| (NC_000913) DNA polymerase I, 3' --> 5' polymerase, 5' --> 3' and
3' --> 5' exonuclease [Escherichia coli K12]
sp|P00582|DPO1_ECOLI DNA polymerase I (POL I)
pir||DJECI DNA-directed DNA polymerase (EC 2.7.7.7) I - Escherichia coli
emb|CAA23607.1| (V00317) DNA polymerase I [Escherichia coli]
gb|AAA24402.1| (J01663) DNA polymerase I [Escherichia coli]
gb|AAB02998.1| (L19201) DNA polymerase I [Escherichia coli]
gb|AAC76861.1| (AE000461) DNA polymerase I, 3' --> 5' polymerase, 5' --> 3' and 3'
--> 5' exonuclease [Escherichia coli K12]
Length = 928
Score = 81.3 bits (199), Expect = 3e-014
Identities = 121/515 (23%), Positives = 196/515 (37%), Gaps = 82/515 (15%)
Query: 115 GRHSLEAWGHRLGHHKSEFGKSLEGDWS---TYSPEMLE----YCARDVEVSVALAKTFV 167
GRH +++ R HK+ + + G T++ LE Y A D +V++ L
Sbjct: 454 GRHDMDSLAERWLKHKTITFEEIAGKGKNQLTFNQIALEEAGRYAAEDADVTLQLHLKMW 513
Query: 168 PKIPEYQWSVDT----EHEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRET 223
P + +++ ++ E + ++S E+ G D + +L L L ++ +
Sbjct: 514 PDLQKHKGPLNVFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLA----ELEKK 569
Query: 224 FHFVDGGVMTPKRSNKVRHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQ 283
H + G EFN +S + +G +P ++T GG
Sbjct: 570 AHEIAG-----------------------EEFNLSSTKQLQTILFEKQGIKPLKKTPGGA 606
Query: 284 PKIDDEILREINTKESLAFARILELQKHLGQLSEGKNAWLKL---ERKGRLH---HSCVL 337
P +E+L E+ L +++ + L +L L L + GR+H H V
Sbjct: 607 PSTSEEVLEELALDYPL--PKVILEYRGLAKLKSTYTDKLPLMINPKTGRVHTSYHQAV- 663
Query: 338 NTNTGRQAHMRPNLAQVPSAHE----YRSLFKPSDNHLQVGSDASGLELRCLGHYLSRYD 393
T TGR + PNL +P +E R F ++++ V +D S +ELR + H LSR D
Sbjct: 664 -TATGRLSSTDPNLQNIPVRNEEGRRIRQAFIAPEDYVIVSADYSQIELRIMAH-LSR-D 720
Query: 394 GGKFAEEVVNGDIHTA-LAEIYG--------TDRKSGKGVTYCLIYGGGNHKLGLTXXXX 444
G DIH A AE++G R+S K + + LIYG L
Sbjct: 721 KGLLTAFAEGKDIHRATAAEVFGLPLETVTSEQRRSAKAINFGLIYGMSAFGL----ARQ 776
Query: 445 XXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAK-SGVLKGLDGRPI-----------RL 492
Q+ + G + + +AK G ++ LDGR + R
Sbjct: 777 LNIPRKEAQKYMDLYFERYPGVLEYMERTRAQAKEQGYVETLDGRRLYLPDIKSSNGARR 836
Query: 493 QGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQAEMA 552
AA+N +Q A I K +I LQ + VHDE V D +
Sbjct: 837 AAAERAAINAPMQGTAADIIKRAMIAVDAWLQAEQPRVRMIMQVHDELVFEVHKDDVDAV 896
Query: 553 AQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
A+ M E+ + L E G +W H
Sbjct: 897 AKQIHQLM---ENCTRLDVPLLVEVGSGENWDQAH 928
>ref|NP_290488.1| (NC_002655) DNA polymerase I, 3' --> 5' polymerase, 5' --> 3' and
3' --> 5' exonuclease [Escherichia coli O157:H7 EDL933]
ref|NP_312813.1| (NC_002695) DNA polymerase I [Escherichia coli O157:H7]
gb|AAG59052.1|AE005617_1 (AE005617) DNA polymerase I, 3' --> 5' polymerase, 5' --> 3' and 3'
--> 5' exonuclease [Escherichia coli O157:H7 EDL933]
dbj|BAB38209.1| (AP002567) DNA polymerase I [Escherichia coli O157:H7]
Length = 928
Score = 81.3 bits (199), Expect = 3e-014
Identities = 121/515 (23%), Positives = 196/515 (37%), Gaps = 82/515 (15%)
Query: 115 GRHSLEAWGHRLGHHKSEFGKSLEGDWS---TYSPEMLE----YCARDVEVSVALAKTFV 167
GRH +++ R HK+ + + G T++ LE Y A D +V++ L
Sbjct: 454 GRHDMDSLAERWLKHKTITFEEIAGKGKNQLTFNQIALEEAGRYAAEDADVTLQLHLKMW 513
Query: 168 PKIPEYQWSVDT----EHEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRET 223
P + +++ ++ E + ++S E+ G D + +L L L ++ +
Sbjct: 514 PDLQKHKGPLNVFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLA----ELEKK 569
Query: 224 FHFVDGGVMTPKRSNKVRHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQ 283
H + G EFN +S + +G +P ++T GG
Sbjct: 570 AHEIAG-----------------------EEFNLSSTKQLQTILFEKQGIKPLKKTPGGA 606
Query: 284 PKIDDEILREINTKESLAFARILELQKHLGQLSEGKNAWLKL---ERKGRLH---HSCVL 337
P +E+L E+ L +++ + L +L L L + GR+H H V
Sbjct: 607 PSTSEEVLEELALDYPL--PKVILEYRGLAKLKSTYTDKLPLMINPKTGRVHTSYHQAV- 663
Query: 338 NTNTGRQAHMRPNLAQVPSAHE----YRSLFKPSDNHLQVGSDASGLELRCLGHYLSRYD 393
T TGR + PNL +P +E R F ++++ V +D S +ELR + H LSR D
Sbjct: 664 -TATGRLSSTDPNLQNIPVRNEEGRRIRQAFIAPEDYVIVSADYSQIELRIMAH-LSR-D 720
Query: 394 GGKFAEEVVNGDIHTA-LAEIYG--------TDRKSGKGVTYCLIYGGGNHKLGLTXXXX 444
G DIH A AE++G R+S K + + LIYG L
Sbjct: 721 KGLLTAFAEGKDIHRATAAEVFGLPLETVTSEQRRSAKAINFGLIYGMSAFGL----ARQ 776
Query: 445 XXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAK-SGVLKGLDGRPI-----------RL 492
Q+ + G + + +AK G ++ LDGR + R
Sbjct: 777 LNIPRKEAQKYMDLYFERYPGVLEYMERTRAQAKEQGYVETLDGRRLYLPDIKSSNGARR 836
Query: 493 QGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQAEMA 552
AA+N +Q A I K +I LQ + VHDE V D +
Sbjct: 837 AAAERAAINAPMQGTAADIIKRAMIAVDAWLQAEQPRVRMIMQVHDELVFEVHRDDVDAV 896
Query: 553 AQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
A+ M E+ + L E G +W H
Sbjct: 897 AKQIHQLM---ENCTRLDVPLLVEVGSGENWDQAH 928
>ref|NP_458049.1| (NC_003198) DNA polymerase I [Salmonella enterica subsp. enterica
serovar Typhi]
emb|CAD03100.1| (AL627280) DNA polymerase I [Salmonella enterica subsp. enterica
serovar Typhi]
Length = 928
Score = 80.9 bits (198), Expect = 4e-014
Identities = 120/519 (23%), Positives = 198/519 (38%), Gaps = 90/519 (17%)
Query: 115 GRHSLEAWGHRLGHHKSEFGKSLEGDWS---TYSPEMLE----YCARDVEVSVALAKTFV 167
GRH +++ R HK+ + + G T++ LE Y A D +V++ L
Sbjct: 454 GRHDMDSLSDRWLKHKTITFEDIAGKGKNQLTFNQIALEEAGRYAAEDADVTLQLHLKMW 513
Query: 168 PKIPEYQWSVDT----EHEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRET 223
P++ +++ ++ E + ++S E+ G D ++ L L ++ +
Sbjct: 514 PELQQHKGPLNVFENIEMPLVPVLSRVERNGVKIDPAVLHKHSEEITLRLA----ELEKK 569
Query: 224 FHFVDGGVMTPKRSNKVRHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQ 283
H + G FN +S + +G +P ++T GG
Sbjct: 570 AHDIAG-----------------------EAFNLSSTKQLQTILFEKQGIKPLKKTPGGA 606
Query: 284 PKIDDEILREINTKESLAFARILELQKHLGQLSEGKNAWLKL---ERKGRLH---HSCVL 337
P +E+L E+ L +++ + L +L L L + GR+H H V
Sbjct: 607 PSTSEEVLEELALDYPL--PKVILEYRGLAKLKSTYTDKLPLMINPKTGRVHTSYHQAV- 663
Query: 338 NTNTGRQAHMRPNLAQVPSAHE----YRSLFKPSDNHLQVGSDASGLELRCLGHYLSRYD 393
T TGR + PNL +P +E R F +++L V +D S +ELR + H LSR D
Sbjct: 664 -TATGRLSSTDPNLQNIPVRNEEGRRIRQAFIAPEDYLIVSADYSQIELRIMAH-LSR-D 720
Query: 394 GGKFAEEVVNGDIHTALA---------EIYGTDRKSGKGVTYCLIYG----GGNHKLGLT 440
G DIH A A + G R+S K + + LIYG G + +L +
Sbjct: 721 KGLLTAFAEGKDIHRATAAEVFGLPLDSVTGEQRRSAKAINFGLIYGMSAFGLSRQLNIP 780
Query: 441 XXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAK-SGVLKGLDGRPI--------- 490
Q+ + G + + +AK G ++ L+GR +
Sbjct: 781 --------RKEAQKYMDLYFERYPGVLEYMERTRAQAKEQGYVETLEGRRLYLPDIKSSN 832
Query: 491 --RLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQ 548
R G AA+N +Q A I K +I LQ + VHDE V D
Sbjct: 833 AARRAGAERAAINAPMQGTAADIIKRAMIAVDAWLQAEQPRVRMIMQVHDELVFEVHKDD 892
Query: 549 AEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWADCH 587
+ A+ M E+ + L E G +W H
Sbjct: 893 LDAVAKRIHQLM---ENCTRIDVPLLVEVGSGENWDQAH 928
>ref|NP_281529.1| (NC_002163) DNA polymerase I [Campylobacter jejuni]
pir||F81453 DNA-directed DNA polymerase (EC 2.7.7.7) I Cj0338c [imported] -
Campylobacter jejuni (strain NCTC 11168)
emb|CAB72805.1| (AL139074) DNA polymerase I [Campylobacter jejuni]
Length = 879
Score = 78.2 bits (191), Expect = 2e-013
Identities = 143/623 (22%), Positives = 247/623 (38%), Gaps = 104/623 (16%)
Query: 3 LAFDIETDGL-IPDLTIIHCIVARDIDTDEEFRFDGTGDYPSIKEGLELLS--KADELW- 58
+AFD ET GL + I+ ++ +E F T +Y + E + L S KA E+
Sbjct: 319 IAFDTETTGLDTKEAKIVGFSFC--MNENEAFYVPLTHNYLGVGEQISLQSAKKAIEVIF 376
Query: 59 -----GHNIVNYDYPAIQKLHPDWTPPSCTRDTLILSRLFFTDLLDRDFRSRPALMPGNL 113
GHN+ YD+ IQ + D P DT+IL+ L P+L
Sbjct: 377 NHFVIGHNL-KYDFKIIQN-NFDLNLPQKYADTMILAWL-----------KNPSL----- 418
Query: 114 YGRHSLEAWGHRLGHHKSEFGKSLEGDWSTYSPEMLE----YCARDVEVSVALAKTFVPK 169
R +++ RL ++++ +SL ++ LE Y A D +++ F+
Sbjct: 419 --RVNMDDLALRLFNYETLHFESLVKKGENFASVELEKACKYAAEDAYITLRFYLYFLKN 476
Query: 170 I--PEYQWSVDTEHEIARIMSWQEQMGFPFDVRAAQALEGKLRLELDTLSDDMRETFHFV 227
+ P + + + E + +I+ E+ G D A + L K E+ LS+++ T
Sbjct: 477 LETPLLELAKNCEFDFIKIIMMMEENGIKLDTNALEILMKKFENEIKNLSEEIY-TLCED 535
Query: 228 DGGVMTPKRSNKVRHYFENAPFCKLREFNPTSRHHIAWAFEHHRGWEPKERTAGGQPKID 287
+ +PK+ + F KL+ P + D
Sbjct: 536 RFNLNSPKQMGDIL-------FEKLKL--------------------PSGKKGKTGYSTD 568
Query: 288 DEILREINTKESLAFARILELQKHLGQLSEGKNAWLKL---ERKGRLHHSCV-LNTNTGR 343
+++L + K + A+IL+ ++ S LKL ++ R++ S + T TGR
Sbjct: 569 EKVLNILLDKHPV-IAKILDYRELAKLYSTYCEPLLKLALKDKNSRIYSSFLQTGTATGR 627
Query: 344 QAHMRPNLAQVPS----AHEYRSLFKPSDNHLQVGSDASGLELRCLGHYLSRYDGGKFAE 399
+ PNL +P+ A +Y+S F D + D S +ELR L H+ + K
Sbjct: 628 LSSKDPNLQNIPAHGQYAKDYKSCFVAKDGFSFISLDYSQIELRILAHF---SEDEKLLN 684
Query: 400 EVVNG-DIHTALA-EIYGTD----RKSGKGVTYCLIYGGGNHKLGLTXXXXXXXXXXXXQ 453
N DIH A I+G R K + + LIYG G L +
Sbjct: 685 AFANDEDIHARTAIMIFGESNYETRSVAKSINFGLIYGMGYKTLSQNLKIEANLAKSYIE 744
Query: 454 EIRGKIMQGLSGFADLNAAIQERAK-SGVLKGLDGR----------PIRLQGKNHAALNY 502
K + + ++ AK +G + L GR P+++ ++N
Sbjct: 745 ----KYFENFTSIKKYFEKVKNEAKQNGFIVTLSGRKRYFDFENAKPMQIAMYERESINS 800
Query: 503 LLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQAEMAAQLTTLAMKD 562
+LQ + A + KL ++ ++ L E D + +HDE V+ D E + T M++
Sbjct: 801 ILQGSAADVIKLAMLEINKELNE---DKKLILQIHDELIFEVKDDLCENFVKKTRDIMEN 857
Query: 563 VEHQVKFRCALDSEYQIGNSWAD 585
+ VK + L + I +W D
Sbjct: 858 I---VKLKVKLKTSSSIAKNWGD 877
>ref|NP_214348.1| (NC_000918) DNA polymerase I (PolI) [Aquifex aeolicus]
sp|O67779|DPO1_AQUAE DNA polymerase I (POL I)
pir||G70468 DNA polymerase I (PolI) - Aquifex aeolicus
gb|AAC07735.1| (AE000765) DNA polymerase I (PolI) [Aquifex aeolicus]
Length = 574
Score = 65.9 bits (159), Expect = 1e-009
Identities = 79/322 (24%), Positives = 132/322 (40%), Gaps = 25/322 (7%)
Query: 278 RTAGGQPKIDDEILREINTKESLAFARILELQKHLGQLSEGKNAWLKLERKGRLHHSCV- 336
+T G DD+ L E + +LE++K L ++++ + + GR++
Sbjct: 259 KTPKGNVSTDDKALTSYQDVEPVKL--VLEIRK-LKKIADKLKELKEHLKNGRVYPEFKQ 315
Query: 337 LNTNTGRQAHMRPNLAQVPSAHEYRSLFKPSDNHLQVGSDASGLELRCLGHY------LS 390
+ TGR + PN+ + + R +FK + + V SD S +ELR Y L
Sbjct: 316 IGAVTGRMSSAHPNIQNIH--RDMRGIFKAEEGNTFVISDFSQIELRIAAEYVKDPLMLD 373
Query: 391 RYDGGK----FAEEVVNGDIHTALAEIYGTDRKSGKGVTYCLIYGGGNHKLG--LTXXXX 444
+ GK + VV G EI +R+ K + + LIYG L
Sbjct: 374 AFKKGKDMHRYTASVVLGKKEE---EITKEERQLAKAINFGLIYGISAKGLAEYAKLGYG 430
Query: 445 XXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAKS-GVLKG--LDGRPIRLQGKNHAALN 501
Q +R + + F + + +++ K G +KG L GR N A +N
Sbjct: 431 VEISLEEAQVLRERFFKNFKAFKEWHDRVKKELKEKGEVKGHTLLGRRFSANTFNDA-VN 489
Query: 502 YLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQAEMAAQLTTLAMK 561
Y +Q GA + KL V+ LQ+ GID + VHDE + ++AE ++ +MK
Sbjct: 490 YPIQGTGADLLKLAVLLFDANLQKKGIDAKLVNLVHDEIVVECEKEKAEEVKEILEKSMK 549
Query: 562 DVEHQVKFRCALDSEYQIGNSW 583
+ ++ E I W
Sbjct: 550 TAGKIILKEVPVEVESVINERW 571
>ref|NP_295430.1| (NC_001263) DNA-directed DNA polymerase [Deinococcus radiodurans]
sp|P52027|DPO1_DEIRA DNA polymerase I (POL I)
pir||E75363 DNA-directed DNA polymerase - Deinococcus radiodurans (strain R1)
gb|AAF11264.1|AE002012_4 (AE002012) DNA-directed DNA polymerase [Deinococcus radiodurans]
Length = 956
Score = 61.6 bits (148), Expect = 2e-008
Identities = 74/283 (26%), Positives = 111/283 (39%), Gaps = 37/283 (13%)
Query: 329 GRLHHSCVLNT-NTGRQAHMRPNLAQVPS----AHEYRSLFKPSDNHLQVGSDASGLELR 383
GRLH + TGR + + PNL +P E R F D + +D S +ELR
Sbjct: 683 GRLHTTFAQTAVATGRLSSLNPNLQNIPIRSELGREIRKGFIAEDGFTLIAADYSQIELR 742
Query: 384 CLGHYLSRYDGGKFAEEVVNG-DIHT-ALAEIYGTD--------RKSGKGVTYCLIYGGG 433
L H D + V G DIH A++ G D R++ K V + ++YG
Sbjct: 743 LLAHIA---DDPLMQQAFVEGADIHRRTAAQVLGLDEATVDANQRRAAKTVNFGVLYGMS 799
Query: 434 NHKLGLTXXXXXXXXXXXXQEIRGKIMQGLSGFADLNAAIQERAKSGVLKGLDGRP---- 489
H+L EI G+ + +N + G ++ L GR
Sbjct: 800 AHRLS-NDLGIPYAEAATFIEIYFATYPGIRRY--INHTLDFGRTHGYVETLYGRRRYVP 856
Query: 490 -------IRLQGKNHAALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVHDEQQL 542
++ + + A N +Q A I KL +++ L G L VHDE +
Sbjct: 857 GLSSRNRVQREAEERLAYNMPIQGTAADIMKLAMVQLDPQLDAIGARM--LLQVHDELLI 914
Query: 543 SVRADQAEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSWAD 585
D+AE A LT M++V V+ + L E G +W D
Sbjct: 915 EAPLDKAEQVAALTKKVMENV---VQLKVPLAVEVGTGPNWFD 954
>ref|NP_188690.1| (NM_112946) DNA polymerase, putative [Arabidopsis thaliana]
Length = 1160
Score = 55.5 bits (132), Expect = 2e-006
Identities = 83/324 (25%), Positives = 132/324 (40%), Gaps = 59/324 (18%)
Query: 291 LREINTKESLAFARILELQKHLGQLSEGKNAWLKLERKGRLHHSCVLNTNTGRQAHMRPN 350
L E+ + +SL IL LQ G GK+ GR+H S +NT TGR + RPN
Sbjct: 727 LCEVCSIDSLISNFILPLQ---GSNVSGKD--------GRVHCSLNINTETGRLSARRPN 775
Query: 351 LAQVPS----AHEYRSLFKPSDNHLQVGSDASGLELRCLGHYLSRYDGGKFAEEVVNGDI 406
L P+ ++ R F S + + +D LELR L H L+ + K A + GD
Sbjct: 776 LQNQPALEKDRYKIRQAFIASPGNSLIVADYGQLELRILAH-LASCESMKEA-FIAGGDF 833
Query: 407 HTALA---------EIYGTDRKSGKGVTYCLIYGGGNHKLGLTXXXXXXXXXXXXQEIRG 457
H+ A + +R+ K + + + Y G T +E +
Sbjct: 834 HSRTAMNMYPHIREAVENGERRKAKMLNFSIAY-------GKTAIGLSRDWKVSREEAQD 886
Query: 458 KIMQGLSGFADLNAAIQERAKSGVLKG----LDGRPIRL------QGKNH---AALNYLL 504
+ + ++ + R K + KG L GR + KNH AA+N +
Sbjct: 887 TVNLWYNDRQEVRKWQELRKKEAIQKGYVLTLLGRARKFPEYRSRAQKNHIERAAINTPV 946
Query: 505 QSAGA--IICKLWVIRTHELLQEAGIDYYPLAFVHDEQQLSVRADQAEMAAQLTTLAMKD 562
Q + A +C + I ++ L+E G + L VHDE L ++ AE A + M +
Sbjct: 947 QGSAADVAMCAMLEISNNQRLKELG--WKLLLQVHDEVILEGPSESAENAKDIVVNCMSE 1004
Query: 563 ---------VEHQVKFRCALDSEY 577
V+ V +CA + +Y
Sbjct: 1005 PFNGKNILSVDLSVDAKCAQNWQY 1028
>pdb|4KTQ|A Chain A, Binary Complex Of The Large Fragment Of Dna Polymerase I
From T. Aquaticus Bound To A PrimerTEMPLATE DNA
Length = 539
Score = 55.5 bits (132), Expect = 2e-006
Identities = 74/286 (25%), Positives = 112/286 (38%), Gaps = 43/286 (15%)
Query: 327 RKGRLHHSCVLN-TNTGRQAHMRPNLAQVPS----AHEYRSLFKPSDNHLQVGSDASGLE 381
R GRLH T TGR + PNL +P R F + L V D S +E
Sbjct: 263 RTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQRIRRAFIAEEGWLLVALDYSQIE 322
Query: 382 LRCLGHYLSRYDGGKFAEEVVNGDIHTALAE-IYGTD--------RKSGKGVTYCLIYGG 432
LR L H + + +E DIHT A ++G R++ K + + ++YG
Sbjct: 323 LRVLAHLSGDENLIRVFQE--GRDIHTETASWMFGVPREAVDPLMRRAAKTINFGVLYGM 380
Query: 433 GNHKLGLTXXXXXXXXXXXXQEIRGKIMQGLSGFADLNA----AIQERAKSGVLKGLDGR 488
H+L +E + I + F + A ++E + G ++ L GR
Sbjct: 381 SAHRL-------SQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEEGRRRGYVETLFGR 433
Query: 489 -------PIRLQGKNHA----ALNYLLQSAGAIICKLWVIRTHELLQEAGIDYYPLAFVH 537
R++ A A N +Q A + KL +++ L+E G L VH
Sbjct: 434 RRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFPRLEEMGARM--LLQVH 491
Query: 538 DEQQLSVRADQAEMAAQLTTLAMKDVEHQVKFRCALDSEYQIGNSW 583
DE L ++AE A+L M+ V L+ E IG W
Sbjct: 492 DELVLEAPKERAEAVARLAKEVMEGV---YPLAVPLEVEVGIGEDW 534
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.320 0.137 3.37e+030
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 354,596,923
Number of Sequences: 922426
Number of extensions: 15441504
Number of successful extensions: 28594
Number of sequences better than 5.0e-02: 113
Number of HSP's better than 0.1 without gapping: 8
Number of HSP's successfully gapped in prelim test: 105
Number of HSP's that attempted gapping in prelim test: 28364
Number of HSP's gapped (non-prelim): 141
length of query: 587
length of database: 289,484,438
effective HSP length: 126
effective length of query: 461
effective length of database: 173,258,762
effective search space: 79872289282
effective search space used: 79872289282
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 94 (40.8 bits)
Query= orf25 [5368-5612]
(243 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570332.1| (NC_003390) exonuclease [Cyanophage P60] >... 502 e-141
ref|NP_523327.1| (NC_003298) exonuclease [Bacteriophage T3]... 102 4e-021
ref|NP_041988.1| (NC_001604) gene 6, exonuclease [Enterobac... 101 7e-021
ref|NP_052100.1| (NC_001271) exonuclease [Bacteriophage phi... 97 1e-019
ref|NP_540742.1| (NC_003317) DNA POLYMERASE I [Brucella mel... 62 4e-009
gb|AAG43148.1|AF063186_1 (AF063186) DNA polymerase I [Rhodo... 62 4e-009
sp|Q9RLB6|DPO1_RICHE DNA polymerase I (POL I) >gi|5912332|e... 57 2e-007
emb|CAB56098.1| (AJ238758) DNA polymerase I [Rickettsia ric... 57 2e-007
ref|NP_104435.1| (NC_002678) DNA polymerase I [Mesorhizobiu... 56 4e-007
emb|CAB56103.1| (AJ238759) DNA polymerase I [Rickettsia sib... 55 5e-007
ref|NP_360843.1| (NC_003103) DNA polymerase I (POL I) [EC:2... 55 5e-007
ref|NP_520351.1| (NC_003295) PROBABLE DNA POLYMERASE I PROT... 55 5e-007
emb|CAB56093.1| (AJ238761) DNA polymerase I [Rickettsia rhi... 55 6e-007
sp|Q10699|EX53_MYCTU Probable 5'-3' exonuclease 54 2e-006
ref|NP_281529.1| (NC_002163) DNA polymerase I [Campylobacte... 52 4e-006
ref|NP_240243.1| (NC_002528) DNA polymerase I [Buchnera sp.... 52 7e-006
ref|NP_224808.1| (NC_000922) DNA Polymerase I [Chlamydophil... 47 2e-004
ref|NP_458049.1| (NC_003198) DNA polymerase I [Salmonella e... 47 2e-004
sp|P52026|DPO1_BACST DNA polymerase I (POL I) 45 5e-004
sp|P19821|DPO1_THEAQ DNA polymerase I, thermostable (Taq po... 45 6e-004
sp|P80194|DPO1_THECA DNA polymerase I, thermostable (TAC po... 44 0.002
ref|NP_372214.1| (NC_002758) DNA polymerase I [Staphylococc... 41 0.012
ref|NP_295430.1| (NC_001263) DNA-directed DNA polymerase [D... 40 0.026
>ref|NP_570332.1| (NC_003390) exonuclease [Cyanophage P60]
gb|AAL73270.1| (AF338467) exonuclease [Cyanophage P60]
Length = 243
Score = 502 bits (1292), Expect = e-141
Identities = 243/243 (100%), Positives = 243/243 (100%)
Query: 1 MKPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDK 60
MKPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDK
Sbjct: 1 MKPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDK 60
Query: 61 VLLTFTDSRNFRKDVEPTYKGNRVKRKPCGYKKLKNWAMKEWPSVMKPGLEADDVMGILA 120
VLLTFTDSRNFRKDVEPTYKGNRVKRKPCGYKKLKNWAMKEWPSVMKPGLEADDVMGILA
Sbjct: 61 VLLTFTDSRNFRKDVEPTYKGNRVKRKPCGYKKLKNWAMKEWPSVMKPGLEADDVMGILA 120
Query: 121 TNGSLDNFVLISPDKDMAQIPCRIYDLKHEYTQTPEKAHELLYLQCLTGDSTDGYSGCPG 180
TNGSLDNFVLISPDKDMAQIPCRIYDLKHEYTQTPEKAHELLYLQCLTGDSTDGYSGCPG
Sbjct: 121 TNGSLDNFVLISPDKDMAQIPCRIYDLKHEYTQTPEKAHELLYLQCLTGDSTDGYSGCPG 180
Query: 181 IGPKRALAILGKVKDGNYWPSVVATYEEAGLKEADAVRNLRLANILKAEHWDTKAQQPIL 240
IGPKRALAILGKVKDGNYWPSVVATYEEAGLKEADAVRNLRLANILKAEHWDTKAQQPIL
Sbjct: 181 IGPKRALAILGKVKDGNYWPSVVATYEEAGLKEADAVRNLRLANILKAEHWDTKAQQPIL 240
Query: 241 ITS 243
ITS
Sbjct: 241 ITS 243
>ref|NP_523327.1| (NC_003298) exonuclease [Bacteriophage T3]
sp|P20321|EXRN_BPT3 Exodeoxyribonuclease (Exonuclease)
pir||S07503 exodeoxyribonuclease (EC 3.1.11.-) - phage T3
emb|CAA35147.1| (X17255) 6 [Bacteriophage T3]
emb|CAC86290.1| (AJ318471) exonuclease [Bacteriophage T3]
Length = 302
Score = 102 bits (253), Expect = 4e-021
Identities = 83/271 (30%), Positives = 129/271 (46%), Gaps = 47/271 (17%)
Query: 6 LLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDT---DKVL 62
L++D D+ +++A + AE + ++ E D K +QI SIK + T+ ++
Sbjct: 22 LVMDGDWLVFQAMSAAEFDASWEEEIWHRCCDHAKARQILEDSIKSYETRKKAWVGAPIV 81
Query: 63 LTFTDSRNFRKD-VEPTYKGNR-VKRKPCGYKKLKN--WAMKEWPSVMKPGLEADDVMGI 118
L FTDS N+RK+ V+P YK NR +KP GY + + +E+ + +P LE DDVMG+
Sbjct: 82 LAFTDSVNWRKELVDPNYKANRKATKKPVGYFEFLEALFEREEFYCIREPMLEGDDVMGV 141
Query: 119 LATNGSL---DNFVLISPDKDMAQIP------CRIYDLKHEYTQTPEKAHELLYLQCLTG 169
+A+N S V+IS DKD IP C ++ TQT E A Q + G
Sbjct: 142 IASNPSAFGARKAVIISCDKDFKTIPNCDFLWCTTGNI---LTQTKETADWWHLFQTIKG 198
Query: 170 DSTDGYSGCPGIG--------------PKRALAILGKVK--------------DGNYWPS 201
D TDGYSG PG G P ++ GK K W
Sbjct: 199 DMTDGYSGIPGWGDTAEGFLNDPFIVEPVESVLKSGKNKGQTVTKWVKRAPDATETLWDC 258
Query: 202 VVATYEEAGLKEADAVRNLRLANILKAEHWD 232
+ + +AG+ E + ++ ++A IL+ E ++
Sbjct: 259 IKSIGAKAGMTEQEIIKQGQMARILRFEEYN 289
>ref|NP_041988.1| (NC_001604) gene 6, exonuclease [Enterobacteria phage T7]
sp|P00638|EXRN_BPT7 Exodeoxyribonuclease (Exonuclease)
pir||NDBPT7 exodeoxyribonuclease (EC 3.1.11.-) - phage T7
emb|CAA24418.1| (V01146) gene 6, exonuclease [Enterobacteria phage T7]
Length = 300
Score = 101 bits (251), Expect = 7e-021
Identities = 83/271 (30%), Positives = 130/271 (47%), Gaps = 47/271 (17%)
Query: 6 LLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTK---FDTDKVL 62
L++D D+ +++A + AE + ++ E D K +QI SIK + T+ + ++
Sbjct: 22 LVMDGDWLVFQAMSAAEFDASWEEEIWHRCCDHAKARQILEDSIKSYETRKKAWAGAPIV 81
Query: 63 LTFTDSRNFRKD-VEPTYKGNR-VKRKPCGYKKLKN--WAMKEWPSVMKPGLEADDVMGI 118
L FTDS N+RK+ V+P YK NR +KP GY + + + +E+ + +P LE DDVMG+
Sbjct: 82 LAFTDSVNWRKELVDPNYKANRKAVKKPVGYFEFLDALFEREEFYCIREPMLEGDDVMGV 141
Query: 119 LATNGS---LDNFVLISPDKDMAQIP------CRIYDLKHEYTQTPEKAHELLYLQCLTG 169
+A+N S V+IS DKD IP C ++ TQT E A Q + G
Sbjct: 142 IASNPSAFGARKAVIISCDKDFKTIPNCDFLWCTTGNI---LTQTEESADWWHLFQTIKG 198
Query: 170 DSTDGYSGCPGIG--------------PKRALAILGKVK--------------DGNYWPS 201
D TDGYSG G G PK ++ GK K W
Sbjct: 199 DITDGYSGIAGWGDTAEDFLNNPFITEPKTSVLKSGKNKGQEVTKWVKRDPEPHETLWDC 258
Query: 202 VVATYEEAGLKEADAVRNLRLANILKAEHWD 232
+ + +AG+ E D ++ ++A IL+ ++
Sbjct: 259 IKSIGAKAGMTEEDIIKQGQMARILRFNEYN 289
>ref|NP_052100.1| (NC_001271) exonuclease [Bacteriophage phiYeO3-12]
emb|CAB63621.1| (AJ251805) exonuclease [Bacteriophage phiYeO3-12]
Length = 303
Score = 97.1 bits (240), Expect = 1e-019
Identities = 82/276 (29%), Positives = 127/276 (45%), Gaps = 47/276 (17%)
Query: 1 MKPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTK---FD 57
M+ L++D D+ +Y++ AE E ++ + + D K + I +I+ + T+ +
Sbjct: 18 MEKGVLVMDGDWLVYQSMAAAEVETDWGDDIWTLECDHAKARSILDSAIESYRTRKKAWS 77
Query: 58 TDKVLLTFTDSRNFRKD-VEPTYKGNR-VKRKPCGYKKL--KNWAMKEWPSVMKPGLEAD 113
V+L FTD N+RK V+ TYK NR RKP GY+ K W E+ + + LE D
Sbjct: 78 DAMVVLAFTDDVNWRKVLVDETYKENRKATRKPVGYRDFLSKLWERDEFIHIKEDMLEGD 137
Query: 114 DVMGILATNGSLDNF---VLISPDKDMAQIP------CRIYDLKHEYTQTPEKAHELLYL 164
DVMGI+ + + F VL+S DKD IP C ++ TQT E A
Sbjct: 138 DVMGIIGSGHEVFGFKKAVLVSCDKDFKTIPDVDFLWCTTGNI---LTQTKETADWWHLF 194
Query: 165 QCLTGDSTDGYSGCPGIG--------------PKRALAILGKVK--------------DG 196
Q + GD TDGYSG PG G P ++ GK K
Sbjct: 195 QTIKGDMTDGYSGIPGWGDTAEAFLNDPFIVEPVESVLKSGKNKGQTVTKWVKRAPDATE 254
Query: 197 NYWPSVVATYEEAGLKEADAVRNLRLANILKAEHWD 232
W + + +AG+ E + ++ ++A IL+ E ++
Sbjct: 255 TLWDCIKSIGAKAGMTEQEIIKQGQMARILRFEEYN 290
>ref|NP_540742.1| (NC_003317) DNA POLYMERASE I [Brucella melitensis]
gb|AAL53006.1| (AE009615) DNA POLYMERASE I [Brucella melitensis]
Length = 994
Score = 62.4 bits (150), Expect = 4e-009
Identities = 49/145 (33%), Positives = 71/145 (48%), Gaps = 17/145 (11%)
Query: 68 SRNFRKDVEPTYKGNRVKRKPCGYKK--LKNWAMKEW--PSVMKPGLEADDVMGILA--T 121
S+ FRK++ P YK NR + L A + + P + K G EADD++ A
Sbjct: 88 SKTFRKEIYPDYKANRTAPPEDLIPQFGLIRQATRAFNLPCIEKEGFEADDLIATYARLA 147
Query: 122 NGSLDNFVLISPDKDMAQI---PCRIYD-LKHEYTQTPE-------KAHELLYLQCLTGD 170
+ + +IS DKD+ Q+ +YD +K + PE +++ LQ LTGD
Sbjct: 148 EKAGGDVTIISSDKDLMQLVTPSVSMYDSMKDKQISIPEVIEKWGVPPEKMIDLQSLTGD 207
Query: 171 STDGYSGCPGIGPKRALAILGKVKD 195
STD G PGIGPK A +L + D
Sbjct: 208 STDNVPGIPGIGPKTAAQLLEEFGD 232
>gb|AAG43148.1|AF063186_1 (AF063186) DNA polymerase I [Rhodococcus erythropolis]
Length = 920
Score = 62.4 bits (150), Expect = 4e-009
Identities = 58/209 (27%), Positives = 95/209 (44%), Gaps = 31/209 (14%)
Query: 3 PLTLLIDADYFLYRACNTAED-ELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDKV 61
P +L+D YFL+RA + T + G Q++ R++ T
Sbjct: 2 PPFVLVDGSYFLFRAFHALPPLTTSTGLHTNAIRGAISAIQKLMRRTQP-------THMA 54
Query: 62 LLTFTDSRNFRKDVEPTYKGNRV-------KRKPCGYKKLKNWAMKEWPSVMKPGLEADD 114
++ T FR ++ P YKG+R ++ P + ++ + P PG EADD
Sbjct: 55 VIFDTPEPTFRHELSPIYKGDRPSMPTELSEQIPYLHALIRALGI---PLHTLPGAEADD 111
Query: 115 VMGILATNG-SLDNFVLISP-DKDMAQIPCRIYDLKHEYTQTP-------EK----AHEL 161
++G LA ++ + VLIS DKDMAQ+ L+ + + P EK +++
Sbjct: 112 IIGTLAKRAEAMGHQVLISTGDKDMAQLVTEKVTLEDSFKEKPLDVDGVFEKFGVWPNQI 171
Query: 162 LYLQCLTGDSTDGYSGCPGIGPKRALAIL 190
+ L GD++DG G PG+G K A +L
Sbjct: 172 IDYLTLMGDASDGIMGVPGVGAKTAAKLL 200
>sp|Q9RLB6|DPO1_RICHE DNA polymerase I (POL I)
emb|CAB56073.1| (AJ238762) DNA polymerase I [Rickettsia helvetica]
Length = 921
Score = 57.0 bits (136), Expect = 2e-007
Identities = 65/249 (26%), Positives = 109/249 (43%), Gaps = 39/249 (15%)
Query: 2 KPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDKV 61
K LLID F++RA + E VG + + + DF K V
Sbjct: 4 KNTLLLIDGYGFVFRAYYAQQPLTSPKGEP---VGALYGFTSMLLKLLSDFKPKH----V 56
Query: 62 LLTF-TDSRNFRKDVEPTYKGNR-------VKRKPCGYKKLKNWAMKEWPSVMKPGLEAD 113
+ F + +NFR + P YK NR + + P N +P + K G EAD
Sbjct: 57 AVVFDSGGKNFRHYIYPEYKANRPPPPEDLIVQLPLVRDVASNL---NFPILEKNGYEAD 113
Query: 114 DVMGILATNGSL--DNFVLISPDKDMAQIPC---RIYD-----------LKHEYTQTPEK 157
D++ AT + +N V+IS DKD+ Q+ +IYD + ++ T +K
Sbjct: 114 DIIATFATKTAALGENVVIISSDKDLLQLMSENIKIYDPLRGKYITEDDVVKKFGTTSDK 173
Query: 158 AHELLYLQCLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVATYEEAGLKEADAV 217
E++ L GD +D G P IGPK A +++ + G+ + + + +K+ + +
Sbjct: 174 LREVM---ALIGDRSDNIPGVPSIGPKTASSLI--TQFGSVENIFNSLDQVSSVKQRETL 228
Query: 218 RNLRLANIL 226
+N R A ++
Sbjct: 229 QNSREAALI 237
>emb|CAB56098.1| (AJ238758) DNA polymerase I [Rickettsia rickettsii]
Length = 875
Score = 57.0 bits (136), Expect = 2e-007
Identities = 60/210 (28%), Positives = 92/210 (43%), Gaps = 31/210 (14%)
Query: 2 KPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDKV 61
K LLID F++RA + E VG + + + DF K V
Sbjct: 4 KNTLLLIDGYGFVFRAYYAQQPLTSPKGEP---VGALYGFTSMLLKLLSDFKPKH----V 56
Query: 62 LLTF-TDSRNFRKDVEPTYKGNR-------VKRKPCGYKKLKNWAMKEWPSVMKPGLEAD 113
+ F + +NFR + P YK NR + + P N +P + K G EAD
Sbjct: 57 AVVFDSGGKNFRHQIYPDYKANRPPPPEDLIVQLPLVRDVASNL---NFPILEKNGYEAD 113
Query: 114 DVMGILATNGSL--DNFVLISPDKDMAQIPC---RIYD-LKHEYTQTPE-------KAHE 160
D++ AT + ++ V+IS DKD+ Q+ +IYD LK +Y + + +
Sbjct: 114 DIIATFATKTAALGEHVVIISSDKDLLQLMTENIKIYDPLKGKYITEDDVVKKFGTTSDK 173
Query: 161 LLYLQCLTGDSTDGYSGCPGIGPKRALAIL 190
L + L GD +D G P IGPK A +++
Sbjct: 174 LREVMALIGDRSDNIPGVPSIGPKTASSLI 203
>ref|NP_104435.1| (NC_002678) DNA polymerase I [Mesorhizobium loti]
dbj|BAB50221.1| (AP003001) DNA polymerase I [Mesorhizobium loti]
Length = 1003
Score = 55.8 bits (133), Expect = 4e-007
Identities = 55/173 (31%), Positives = 76/173 (43%), Gaps = 32/173 (18%)
Query: 68 SRNFRKDVEPTYKGNRVKRKPCGYKK--LKNWAMKEW--PSVMKPGLEADDVMGI---LA 120
S+ FR D+ P YK NR + L A K + P + G EADD++ LA
Sbjct: 88 SKTFRNDLYPEYKANRSAPPEDLIPQFGLIRQATKAFNLPCIEMEGFEADDLIATYCRLA 147
Query: 121 TNGSLDNFVLISPDKDMAQI---PCRIYD-LKHEYTQTPE-------KAHELLYLQCLTG 169
D +IS DKD+ Q+ +YD +K PE +++ LQ LTG
Sbjct: 148 REAGGDT-TIISSDKDLMQLVGDTVGMYDPMKDRQIGIPEVIEKWGVPPEKMVDLQALTG 206
Query: 170 DSTDGYSGCPGIGPKRA-------------LAILGKVKDGNYWPSVVATYEEA 209
DS D G PGIGPK A LA G++K S++A ++A
Sbjct: 207 DSVDNVPGVPGIGPKTAAQLLEQFGDLDGLLARAGEIKQDKRRESIIANTDKA 259
>emb|CAB56103.1| (AJ238759) DNA polymerase I [Rickettsia sibirica]
Length = 875
Score = 55.5 bits (132), Expect = 5e-007
Identities = 65/246 (26%), Positives = 108/246 (43%), Gaps = 33/246 (13%)
Query: 2 KPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDKV 61
K LLID F++RA + E VG + + + DF K V
Sbjct: 4 KNTLLLIDGYGFVFRAYYAQQPLTSPKGEP---VGALYGFTSMLLKLLSDFKPKH----V 56
Query: 62 LLTF-TDSRNFRKDVEPTYKGNR-------VKRKPCGYKKLKNWAMKEWPSVMKPGLEAD 113
+ F + +NFR + P YK NR + + P N +P + K G EAD
Sbjct: 57 AVVFDSGGKNFRHQIYPDYKANRPPPPEDLIIQLPLVRDVASNL---NFPILEKNGYEAD 113
Query: 114 DVMGILATNGSL--DNFVLISPDKDMAQIPC---RIYD-LKHEYTQTPE-------KAHE 160
D++ AT + + V+IS DKD+ Q+ +IYD LK +Y + + +
Sbjct: 114 DIIATFATKTAALGAHVVIISSDKDLLQLMTENIKIYDPLKGKYITEDDVVKKFGTTSDK 173
Query: 161 LLYLQCLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVATYEEAGLKEADAVRNL 220
L + L GD +D G P IGPK A +++ + G+ + + + +K+ + ++N
Sbjct: 174 LREVMALIGDRSDNIPGVPSIGPKTASSLI--TQFGSVENIFNSLDQVSSVKQRETLQNS 231
Query: 221 RLANIL 226
R A ++
Sbjct: 232 REAALI 237
>ref|NP_360843.1| (NC_003103) DNA polymerase I (POL I) [EC:2.7.7.7] [Rickettsia
conorii]
gb|AAL03744.1| (AE008667) DNA polymerase I (POL I) [EC:2.7.7.7] [Rickettsia
conorii]
Length = 875
Score = 55.5 bits (132), Expect = 5e-007
Identities = 65/246 (26%), Positives = 108/246 (43%), Gaps = 33/246 (13%)
Query: 2 KPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDKV 61
K LLID F++RA + E VG + + + DF K V
Sbjct: 4 KNTLLLIDGYGFVFRAYYAQQPLTSPKGEP---VGALYGFTSMLLKLLSDFKPKH----V 56
Query: 62 LLTF-TDSRNFRKDVEPTYKGNR-------VKRKPCGYKKLKNWAMKEWPSVMKPGLEAD 113
+ F + +NFR + P YK NR + + P N +P + K G EAD
Sbjct: 57 AVVFDSGGKNFRHQIYPDYKANRPPPPEDLIIQLPLVRDVASNL---NFPILEKNGYEAD 113
Query: 114 DVMGILATNGSL--DNFVLISPDKDMAQIPC---RIYD-LKHEYTQTPE-------KAHE 160
D++ AT + + V+IS DKD+ Q+ +IYD LK +Y + + +
Sbjct: 114 DIIATFATKTAALGAHVVIISSDKDLLQLMTENIKIYDPLKGKYITEDDVVKKFGTTSDK 173
Query: 161 LLYLQCLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVATYEEAGLKEADAVRNL 220
L + L GD +D G P IGPK A +++ + G+ + + + +K+ + ++N
Sbjct: 174 LREVMALIGDRSDNIPGVPSIGPKTASSLI--TQFGSVENIFNSLDQVSSVKQRETLQNS 231
Query: 221 RLANIL 226
R A ++
Sbjct: 232 REAALI 237
>ref|NP_520351.1| (NC_003295) PROBABLE DNA POLYMERASE I PROTEIN [Ralstonia
solanacearum]
emb|CAD15937.1| (AL646069) PROBABLE DNA POLYMERASE I PROTEIN [Ralstonia
solanacearum]
Length = 946
Score = 55.5 bits (132), Expect = 5e-007
Identities = 57/206 (27%), Positives = 95/206 (45%), Gaps = 27/206 (13%)
Query: 6 LLIDADYFLYRACNTAEDELEFD-FETTLVVGDFRKGQQIFRQSIKDFTTKFDTDKVLLT 64
LL+D +LYRA + D + F T + G + R+ D+ K+ +
Sbjct: 11 LLVDGSSYLYRAYHALPDLRNGEGFPTGAIYGIVN----MLRKLRNDYPAKYSA---CVF 63
Query: 65 FTDSRNFRKDVEPTYKGNRVKRKPCGYKKLK--NWAMKE--WPSVMKPGLEADDVMGILA 120
+ FR ++ P YK +R ++++ + A++ WP +M G+EADDV+G LA
Sbjct: 64 DAKGKTFRDELYPAYKEHRAPMPDDLRQQIEPIHEAVRALGWPILMVDGVEADDVIGTLA 123
Query: 121 TNGSLDNF--VLISPDKDMAQIPCRIYDLKHEYT-QTPEKAHELL-----------YLQC 166
+ + V+ + DKD+AQ+ L + + +T + A L YL
Sbjct: 124 ERAAREGIRTVVSTGDKDLAQLVNDHVTLVNTMSNETLDPAGVLAKFGVPPGKIVDYLS- 182
Query: 167 LTGDSTDGYSGCPGIGPKRALAILGK 192
L GD+ D G P +GPK A+ LG+
Sbjct: 183 LIGDTVDNVPGVPKVGPKTAVKWLGE 208
>emb|CAB56093.1| (AJ238761) DNA polymerase I [Rickettsia rhipicephali]
Length = 875
Score = 55.1 bits (131), Expect = 6e-007
Identities = 63/251 (25%), Positives = 109/251 (43%), Gaps = 43/251 (17%)
Query: 2 KPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQI-----FRQSIKDFTTKF 56
K LLID F++RA T + + KG+ + F + + F
Sbjct: 4 KNTLLLIDGYGFVFRAYYTQQPL------------NSPKGEPVGALYGFTSMLLKLLSDF 51
Query: 57 DTDKVLLTF-TDSRNFRKDVEPTYKGNR-------VKRKPCGYKKLKNWAMKEWPSVMKP 108
V + F + +NFR + YK NR + + P N +P + K
Sbjct: 52 KPQHVAVVFDSGGKNFRHQIYSDYKANRPPPPEDLIVQLPLVRDVAGNL---NFPILEKN 108
Query: 109 GLEADDVMGILATNGSL--DNFVLISPDKDMAQIPC---RIYD-LKHEYTQTPE------ 156
G EADD++ AT + ++ V+IS DKD+ Q+ +IYD LK +Y +
Sbjct: 109 GYEADDIIATFATKTAALGEHVVIISSDKDLLQLMTEHIKIYDPLKGKYITEDDVVKKFG 168
Query: 157 -KAHELLYLQCLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVATYEEAGLKEAD 215
+ +L + L GD +D G P IGPK A +++ + G+ + + + +K+ +
Sbjct: 169 TTSDKLREVMALIGDRSDNIPGVPSIGPKTASSLI--TQFGSVENIFNSLDQVSSIKQRE 226
Query: 216 AVRNLRLANIL 226
++N R A ++
Sbjct: 227 TLQNSREAALI 237
>sp|Q10699|EX53_MYCTU Probable 5'-3' exonuclease
Length = 318
Score = 53.5 bits (127), Expect = 2e-006
Identities = 46/160 (28%), Positives = 67/160 (41%), Gaps = 38/160 (23%)
Query: 71 FRKDVEPTYKGNRVKR-KPCGYKKLKNWAMKEWPSVMK---------------PGLEADD 114
FR D+ P+YK +RV +P G ++ + P V PG EADD
Sbjct: 67 FRVDLIPSYKAHRVAEPEPNGQPDVEEVPDELTPQVDMIMELLDAFGIAMAGAPGFEADD 126
Query: 115 VMGILATNGSLDNFVLISPDKDMAQ------IPCRIYDLKHEYTQT----PEKAHE---- 160
V+G LAT D +++S D+D+ Q +P R+ L + P + E
Sbjct: 127 VLGTLATRERRDPVIVVSGDRDLLQVVADDPVPVRVLYLGRGLAKATLFGPAEVAERYGL 186
Query: 161 --------LLYLQCLTGDSTDGYSGCPGIGPKRALAILGK 192
L L GD +DG G PG+G K A +L +
Sbjct: 187 PAHRAGAAYAELALLRGDPSDGLPGVPGVGEKTAATLLAR 226
>ref|NP_281529.1| (NC_002163) DNA polymerase I [Campylobacter jejuni]
pir||F81453 DNA-directed DNA polymerase (EC 2.7.7.7) I Cj0338c [imported] -
Campylobacter jejuni (strain NCTC 11168)
emb|CAB72805.1| (AL139074) DNA polymerase I [Campylobacter jejuni]
Length = 879
Score = 52.4 bits (124), Expect = 4e-006
Identities = 53/197 (26%), Positives = 88/197 (43%), Gaps = 25/197 (12%)
Query: 45 FRQSIKDFTTKFDTDKVLLTF-TDSRNFRKDVEPTYKGNRVKRKPCGYKKL----KNWAM 99
F I ++ +D ++ + + FR +++P YK NR P +++ K
Sbjct: 37 FANFIYSLKNEYKSDYIVFALDSKGKTFRSEIDPNYKQNRTPPPPELLEQIPICIKMIEK 96
Query: 100 KEWPSVMKPGLEADDVMG-ILATNGSLDNFV-LISPDKDMAQI----PCRIYD--LKHEY 151
+ SV + G EADD++ + T + D FV +I+ DKD+ Q+ IY K++Y
Sbjct: 97 MGFISVSQEGYEADDIIASFVKTCENRDIFVRIITQDKDLYQLIKDGKTSIYSPISKNDY 156
Query: 152 TQTP------EKAHELLYLQCLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVAT 205
+ K +++ L GDS+D G GIG K A +L + + S+
Sbjct: 157 DEAACLEKYGVKPNQIRDFLALCGDSSDNIPGVKGIGAKGAKTLLDE------FGSIEGI 210
Query: 206 YEEAGLKEADAVRNLRL 222
YE L + RNL L
Sbjct: 211 YENLTLVRNERSRNLLL 227
>ref|NP_240243.1| (NC_002528) DNA polymerase I [Buchnera sp. APS]
sp|P57506|EX53_BUCAI Probable 5'-3' exonuclease
dbj|BAB13129.1| (AP001119) DNA polymerase I [Buchnera sp. APS]
Length = 286
Score = 51.6 bits (122), Expect = 7e-006
Identities = 48/155 (30%), Positives = 74/155 (46%), Gaps = 26/155 (16%)
Query: 60 KVLLTFTDSRN-FRKDVEPTYKGNR--------VKRKPCGYKKLKNWAMKEWPSVMKPGL 110
K+++ F SR FR + YK NR ++ +P ++ LK +K ++ PG+
Sbjct: 58 KIIIIFDSSRKTFRNKLFKEYKKNRSSMPDLLVMQIQPL-FEILKKIGIK---TLTIPGI 113
Query: 111 EADDVMGILA--TNGSLDNFVLISPDKDMAQIPCR---IYDLKHEYTQTPE--------K 157
EADDV+G L+ + +++S DKDM Q+ I+ K+ T E K
Sbjct: 114 EADDVIGSLSYQLEKQGEKILILSHDKDMLQLVTENINIFHKKNNCIITSEIIQEKYGIK 173
Query: 158 AHELLYLQCLTGDSTDGYSGCPGIGPKRALAILGK 192
E + L GD+TD G P IG K AL ++ K
Sbjct: 174 PKEFIDFLALMGDATDNIPGVPKIGIKTALFLINK 208
>ref|NP_224808.1| (NC_000922) DNA Polymerase I [Chlamydophila pneumoniae CWL029]
ref|NP_300668.1| (NC_002491) DNA polymerase I [Chlamydophila pneumoniae J138]
ref|NP_444687.1| (NC_002179) DNA polymerase I [Chlamydophila pneumoniae AR39]
pir||F72058 DNA polymerase I CP0135 [imported] - Chlamydophila pneumoniae
(strains CWL029 and AR39)
gb|AAD18751.1| (AE001645) DNA Polymerase I [Chlamydophila pneumoniae CWL029]
gb|AAF38018.1| (AE002175) DNA polymerase I [Chlamydophila pneumoniae AR39]
dbj|BAA98819.1| (AP002547) DNA polymerase I [Chlamydophila pneumoniae J138]
Length = 870
Score = 47.0 bits (110), Expect = 2e-004
Identities = 54/213 (25%), Positives = 93/213 (43%), Gaps = 34/213 (15%)
Query: 1 MKPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDK 60
MK L +L DA F++RA + + T V F + + IK+F+ ++
Sbjct: 1 MKKLFVL-DASGFIFRAYFALPEMKNHQGQATQAVFGFIRS---LNKLIKEFSPEYMIS- 55
Query: 61 VLLTFTDSRNFRKDVEPTYKGNRVKRKPCGYKKLKNWAMKEWPSVM------KPGLEADD 114
+ +++ R+ + YK NR K+ ++ +KE+ S++ K +EADD
Sbjct: 56 -VFDGPNNKQSRQAIYADYKSNRQKKFEDIPPQIA--LVKEYCSLIGLAYLEKESVEADD 112
Query: 115 VMGILATNGSLDNF--VLISPDKDMAQIP---------------CRIYDLKHEYTQTPEK 157
V+ +A +N+ + + DKD+ Q+ I ++ Y P
Sbjct: 113 VIASIAKKAREENYKVYVCTADKDLLQLVNDHVVAWNPWADQGVVGISEVIERYGIPPGN 172
Query: 158 AHELLYLQCLTGDSTDGYSGCPGIGPKRALAIL 190
+ L L GDS+D G PG GPK+A A+L
Sbjct: 173 IPDYL---ALVGDSSDNIPGLPGCGPKKAAALL 202
>ref|NP_458049.1| (NC_003198) DNA polymerase I [Salmonella enterica subsp. enterica
serovar Typhi]
emb|CAD03100.1| (AL627280) DNA polymerase I [Salmonella enterica subsp. enterica
serovar Typhi]
Length = 928
Score = 46.6 bits (109), Expect = 2e-004
Identities = 39/104 (37%), Positives = 50/104 (47%), Gaps = 19/104 (18%)
Query: 103 PSVMKPGLEADDVMGILATNGS-LDNFVLISP-DKDMAQIPCRIYDLKHEYTQT------ 154
P + G+EADDV+G LA + VLIS DKDMAQ+ + L + T T
Sbjct: 105 PLLAVSGVEADDVIGTLAREAEKVGRPVLISTGDKDMAQLVTQNITLINTMTNTILGPDE 164
Query: 155 --------PEKAHELLYLQCLTGDSTDGYSGCPGIGPKRALAIL 190
PE + L L GDS+D G PG+G K A A+L
Sbjct: 165 VVNKYGVPPELIIDFL---ALMGDSSDNIPGVPGVGEKTAQALL 205
>sp|P52026|DPO1_BACST DNA polymerase I (POL I)
Length = 876
Score = 45.4 bits (106), Expect = 5e-004
Identities = 66/248 (26%), Positives = 103/248 (40%), Gaps = 44/248 (17%)
Query: 1 MKPLTLLIDADYFLYRACNTAEDELEFD--FETTLVVGDFRKGQQIFRQSIKDFTTKFDT 58
MK +LID + YRA A L D T V G F + +
Sbjct: 1 MKNKLVLIDGNSVAYRAF-FALPLLHNDKGIHTNAVYG--------FTMMLNKILAEEQP 51
Query: 59 DKVLLTFTDSRN-FRKDVEPTYKGNRVKRKPCGYKK--LKNWAMKEW--PSVMKPGLEAD 113
+L+ F + FR + YKG R + P ++ L +K + P+ EAD
Sbjct: 52 THILVAFDAGKTTFRHETFQDYKGGRQQTPPELSEQFPLLRELLKAYRIPAYELDHYEAD 111
Query: 114 DVMGILATNGSLDNFVL--ISPDKDMAQIPCR----------IYDLK--------HEYTQ 153
D++G +A + F + IS D+D+ Q+ I D++ +Y
Sbjct: 112 DIIGTMAARAEREGFAVKVISGDRDLTQLASPQVTVEITKKGITDIESYTPETVVEKYGL 171
Query: 154 TPEKAHELLYLQCLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVATYEEAGLKE 213
TPE +++ L+ L GD +D G PGIG K A+ +L K +V+A+ +E +K
Sbjct: 172 TPE---QIVDLKGLMGDKSDNIPGVPGIGEKTAVKLL---KQFGTVENVLASIDE--IKG 223
Query: 214 ADAVRNLR 221
NLR
Sbjct: 224 EKLKENLR 231
>sp|P19821|DPO1_THEAQ DNA polymerase I, thermostable (Taq polymerase 1)
pir||A33530 DNA-directed DNA polymerase (EC 2.7.7.7) I - Thermus aquaticus
pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab
pdb|1CMW|A Chain A, Crystal Structure Of Taq Dna-Polymerase Shows A New
Orientation For The Structure-Specific Nuclease Domain
gb|AAA27507.1| (J04639) DNA polymerase [Thermus aquaticus]
Length = 832
Score = 45.1 bits (105), Expect = 6e-004
Identities = 64/236 (27%), Positives = 98/236 (41%), Gaps = 40/236 (16%)
Query: 2 KPLTLLIDADYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTTKFDTDKV 61
K LL+D + YR + + E V F K +++K+ D D V
Sbjct: 11 KGRVLLVDGHHLAYRTFHALKGLTTSRGEPVQAVYGFAKS---LLKALKE-----DGDAV 62
Query: 62 LLTF-TDSRNFRKDVEPTYKGNRVKRKPCGYKKLKNWAMKEWPSVMK------PGLEADD 114
++ F + +FR + YK R ++L +KE ++ PG EADD
Sbjct: 63 IVVFDAKAPSFRHEAYGGYKAGRAPTPEDFPRQLA--LIKELVDLLGLARLEVPGYEADD 120
Query: 115 VMGILATNGSLDNFV--LISPDKDMAQIPC-RIYDLKHE-YTQTPEKAHELLYLQ----- 165
V+ LA + + +++ DKD+ Q+ RI+ L E Y TP E L+
Sbjct: 121 VLASLAKKAEKEGYEVRILTADKDLYQLLSDRIHVLHPEGYLITPAWLWEKYGLRPDQWA 180
Query: 166 ---CLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVATYEEAGLKEADAVR 218
LTGD +D G GIG K A +L + W S+ EA LK D ++
Sbjct: 181 DYRALTGDESDNLPGVKGIGEKTARKLLEE------WGSL-----EALLKNLDRLK 225
>sp|P80194|DPO1_THECA DNA polymerase I, thermostable (TAC polymerase 1)
gb|AAB81398.1| (U62584) thermostable DNA polymerase [Thermus caldophilus]
Length = 834
Score = 43.5 bits (101), Expect = 0.002
Identities = 40/139 (28%), Positives = 62/139 (43%), Gaps = 23/139 (16%)
Query: 108 PGLEADDVMGILATNGSLDNFV--LISPDKDMAQIPCRIYDLKHE--YTQTPE------- 156
PG EADDV+ LA N + + +++ D+D+ Q+ + H + TPE
Sbjct: 115 PGYEADDVLATLAKNPEKEGYEVRILTADRDLDQLVSDRVAVLHPEGHLITPEWLWQKYG 174
Query: 157 -KAHELLYLQCLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVATYEEAGLKEAD 215
K + + + L GD +D G GIG K AL +L + W S+ E LK D
Sbjct: 175 LKPEQWVDFRALVGDPSDNLPGVKGIGEKTALKLLKE------WGSL-----ENLLKNLD 223
Query: 216 AVRNLRLANILKAEHWDTK 234
V+ + +KA D +
Sbjct: 224 RVKPENVREKIKAHLEDLR 242
>ref|NP_372214.1| (NC_002758) DNA polymerase I [Staphylococcus aureus subsp. aureus
Mu50]
ref|NP_374801.1| (NC_002745) DNA polymerase I [Staphylococcus aureus subsp. aureus
N315]
dbj|BAB42780.1| (AP003134) DNA polymerase I [Staphylococcus aureus subsp. aureus
N315]
dbj|BAB57852.1| (AP003363) DNA polymerase I [Staphylococcus aureus subsp. aureus
Mu50]
Length = 876
Score = 40.8 bits (94), Expect = 0.012
Identities = 51/217 (23%), Positives = 87/217 (39%), Gaps = 46/217 (21%)
Query: 52 FTTKFDTDKVLLTFTDSRNFRKDVEPTYKGNRVKRKPCGYKK-------LKNWAMKEWPS 104
F FD K FR + YKG R K P ++ L + +K +
Sbjct: 53 FLVAFDAGKT--------TFRHEKYSEYKGGRQKTPPELSEQFPYIRQLLDAYHIKRYEL 104
Query: 105 VMKPGLEADDVMGILATNGSLDNF--VLISPDKDMAQIPC---RIYDLKHEYTQ----TP 155
EADD++G L+ F ++I+ D+D+ Q+ IY K T TP
Sbjct: 105 ---DNYEADDIIGTLSKEADKAGFQTIIITGDRDLTQLATDNVTIYYTKKGVTDVDHYTP 161
Query: 156 E---------KAHELLYLQCLTGDSTDGYSGCPGIGPKRALAILGKVKDGNYWPSVVATY 206
+ ++++ ++ L GD++D G G+G K A+ +L N + +V Y
Sbjct: 162 DFIAEKYNGLTPNQIIDMKGLMGDTSDNIPGVAGVGEKTAIKLL------NQFDTVEGVY 215
Query: 207 EE----AGLKEADAVRNLRLANILKAEHWDTKAQQPI 239
E +G K + ++N + ++ E PI
Sbjct: 216 EHLDEISGKKLKEKLQNSKEDALMSKELATINVDSPI 252
>ref|NP_295430.1| (NC_001263) DNA-directed DNA polymerase [Deinococcus radiodurans]
sp|P52027|DPO1_DEIRA DNA polymerase I (POL I)
pir||E75363 DNA-directed DNA polymerase - Deinococcus radiodurans (strain R1)
gb|AAF11264.1|AE002012_4 (AE002012) DNA-directed DNA polymerase [Deinococcus radiodurans]
Length = 956
Score = 39.7 bits (91), Expect = 0.026
Identities = 53/212 (25%), Positives = 87/212 (41%), Gaps = 36/212 (16%)
Query: 2 KPLTL-LIDA------DYFLYRACNTAEDELEFDFETTLVVGDFRKGQQIFRQSIKDFTT 54
KP TL LID YF N ++ E+ T +VG + ++ RQ
Sbjct: 45 KPDTLVLIDGHALAFRSYFALPPLNNSKGEM-----THAIVGFMKLLLRLARQKSNQVIV 99
Query: 55 KFDTDKVLLTFTDSRNFRKDVEPTYKGNRVKRK---PCGYKKLKNWA-MKEWPSVMKPGL 110
FD + FR + YK R + P +++ +P + +PG
Sbjct: 100 VFDPPV--------KTFRHEQYEGYKSGRAQTPEDLPGQINRIRALVDALGFPRLEEPGY 151
Query: 111 EADDVMGILA--TNGSLDNFVLISPDKDMAQI-PCRIYDLKHEYT-----QTPEK----A 158
EADDV+ L G +++ D+D Q+ + + ++++ Q EK
Sbjct: 152 EADDVIASLTRMAEGKGYEVRIVTSDRDAYQLLDEHVKVIANDFSLIGPAQVEEKYGVTV 211
Query: 159 HELLYLQCLTGDSTDGYSGCPGIGPKRALAIL 190
+ + + LTGD++D G GIGPK A +L
Sbjct: 212 RQWVDYRALTGDASDNIPGAKGIGPKTAAKLL 243
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.319 0.137 6.01e-154
Gapped
Lambda K H
0.267 0.0410 5.56e+169
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 148,045,200
Number of Sequences: 922426
Number of extensions: 6428859
Number of successful extensions: 12034
Number of sequences better than 5.0e-02: 98
Number of HSP's better than 0.1 without gapping: 4
Number of HSP's successfully gapped in prelim test: 94
Number of HSP's that attempted gapping in prelim test: 11937
Number of HSP's gapped (non-prelim): 102
length of query: 243
length of database: 289,484,438
effective HSP length: 117
effective length of query: 126
effective length of database: 181,560,596
effective search space: 22876635096
effective search space used: 22876635096
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 89 (38.9 bits)
Query= orf26 [5611-5692]
(80 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570333.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 167 2e-041
>ref|NP_570333.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73271.1| (AF338467) unknown [Cyanophage P60]
Length = 80
Score = 167 bits (423), Expect = 2e-041
Identities = 80/80 (100%), Positives = 80/80 (100%)
Query: 1 MTLILYPTVLLLFVGALYAEFDPWFKELCIILWQAIAIELRKIPFLIRMEWDIFWMKRNK 60
MTLILYPTVLLLFVGALYAEFDPWFKELCIILWQAIAIELRKIPFLIRMEWDIFWMKRNK
Sbjct: 1 MTLILYPTVLLLFVGALYAEFDPWFKELCIILWQAIAIELRKIPFLIRMEWDIFWMKRNK 60
Query: 61 KKYLKMAEQIRKQLEDETNR 80
KKYLKMAEQIRKQLEDETNR
Sbjct: 61 KKYLKMAEQIRKQLEDETNR 80
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.331 0.144 5.29e+180
Gapped
Lambda K H
0.267 0.0410 3.79e-096
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 44,889,029
Number of Sequences: 922426
Number of extensions: 1544834
Number of successful extensions: 5553
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 5552
Number of HSP's gapped (non-prelim): 1
length of query: 80
length of database: 289,484,438
effective HSP length: 56
effective length of query: 24
effective length of database: 237,828,582
effective search space: 5707885968
effective search space used: 5707885968
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf27 [5686-5743]
(56 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.319 0.138 3.79e-096
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 33,635,073
Number of Sequences: 922426
Number of extensions: 1015621
Number of successful extensions: 1734
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1734
Number of HSP's gapped (non-prelim): 0
length of query: 56
length of database: 289,484,438
effective HSP length: 32
effective length of query: 24
effective length of database: 259,966,806
effective search space: 6239203344
effective search space used: 6239203344
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 84 (37.0 bits)
Query= orf28 [5743-5825]
(81 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570334.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 169 7e-042
ref|NP_471915.1| (NC_003212) lin2585 [Listeria innocua] >gi... 44 3e-004
ref|NP_375086.1| (NC_002745) hypothetical protein [Bacterio... 44 5e-004
gb|AAL82296.1| (AF424782) hypothetical protein [Staphylococ... 43 8e-004
ref|NP_511035.1| (NC_003291) Gp52 protein [Listeria phage 2... 42 0.001
>ref|NP_570334.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73272.1| (AF338467) unknown [Cyanophage P60]
Length = 81
Score = 169 bits (427), Expect = 7e-042
Identities = 81/81 (100%), Positives = 81/81 (100%)
Query: 1 MSKYSPSHYKKGSIEVWDFITDQDLNYLEGNIVKYLCRAGSKPHESRIDDLLKAKAYLQK 60
MSKYSPSHYKKGSIEVWDFITDQDLNYLEGNIVKYLCRAGSKPHESRIDDLLKAKAYLQK
Sbjct: 1 MSKYSPSHYKKGSIEVWDFITDQDLNYLEGNIVKYLCRAGSKPHESRIDDLLKAKAYLQK 60
Query: 61 LIDSTSDHDLTLKASDRIPYK 81
LIDSTSDHDLTLKASDRIPYK
Sbjct: 61 LIDSTSDHDLTLKASDRIPYK 81
>ref|NP_471915.1| (NC_003212) lin2585 [Listeria innocua]
emb|CAC97812.1| (AL596172) lin2585 [Listeria innocua]
Length = 214
Score = 43.9 bits (102), Expect = 3e-004
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 6/62 (9%)
Query: 5 SPSHYKKGSIEVWDFI---TDQDLNYLEGNIVKYLCRAGSKPHESRIDDLLKAKAYLQKL 61
+P+HY G IE D+I + +Y GNI+KY+ R H++ I+DL KA+ YL L
Sbjct: 151 NPAHYTAGGIETLDYIKAKVNDYPSYAVGNILKYVSR---YEHKNGIEDLKKAQFYLNNL 207
Query: 62 ID 63
I+
Sbjct: 208 IE 209
>ref|NP_375086.1| (NC_002745) hypothetical protein [Bacteriophage phiN315]
[Staphylococcus aureus subsp. aureus N315]
dbj|BAB43065.1| (AP003135) hypothetical protein [Staphylococcus aureus subsp.
aureus N315]
Length = 85
Score = 43.5 bits (101), Expect = 5e-004
Identities = 26/64 (40%), Positives = 35/64 (54%), Gaps = 9/64 (14%)
Query: 6 PSHYKKGSIEVWDFITD------QDLNYLEGNIVKYLCRAGSKPHESRIDDLLKAKAYLQ 59
P+HY G IE+ DFI L + GN +KYL RA P ++ +DL KAK Y+Q
Sbjct: 21 PAHYTYGDIEIIDFIEQVTAQYPPQLAFAIGNAIKYLSRA---PLKNGHEDLAKAKFYVQ 77
Query: 60 KLID 63
+ D
Sbjct: 78 RAFD 81
>gb|AAL82296.1| (AF424782) hypothetical protein [Staphylococcus aureus phage phi
12]
Length = 85
Score = 42.7 bits (99), Expect = 8e-004
Identities = 25/64 (39%), Positives = 35/64 (54%), Gaps = 9/64 (14%)
Query: 6 PSHYKKGSIEVWDFITD------QDLNYLEGNIVKYLCRAGSKPHESRIDDLLKAKAYLQ 59
P+HY G IE+ DFI L + GN +KY+ RA P ++ +DL KAK Y+Q
Sbjct: 21 PAHYTYGDIEIIDFIEQVTAQYPPQLAFAIGNAIKYMSRA---PLKNGHEDLAKAKFYVQ 77
Query: 60 KLID 63
+ D
Sbjct: 78 RAFD 81
>ref|NP_511035.1| (NC_003291) Gp52 protein [Listeria phage 2389]
emb|CAC85610.1| (AJ312240) Gp52 protein [Bacteriophage PSA]
Length = 213
Score = 42.4 bits (98), Expect = 0.001
Identities = 25/62 (40%), Positives = 36/62 (57%), Gaps = 6/62 (9%)
Query: 5 SPSHYKKGSIEVWDFI---TDQDLNYLEGNIVKYLCRAGSKPHESRIDDLLKAKAYLQKL 61
+PSHY G IE D+I +Y GNI+KY+ R +++ I+DL KA+ YL L
Sbjct: 150 NPSHYTSGGIETLDYIKAKVKDYPSYAAGNILKYVSR---YEYKNGIEDLKKAQFYLNDL 206
Query: 62 ID 63
I+
Sbjct: 207 IE 208
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.134 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 46,137,302
Number of Sequences: 922426
Number of extensions: 1538917
Number of successful extensions: 3235
Number of sequences better than 5.0e-02: 5
Number of HSP's better than 0.1 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 3230
Number of HSP's gapped (non-prelim): 5
length of query: 81
length of database: 289,484,438
effective HSP length: 57
effective length of query: 24
effective length of database: 236,906,156
effective search space: 5685747744
effective search space used: 5685747744
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 84 (37.0 bits)
Query= orf29 [5825-5930]
(104 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570335.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 210 2e-054
pir||T35101 hypothetical protein SC4H2.02 SC4H2.02 - Strept... 66 6e-011
ref|NP_295953.1| (NC_001263) conserved hypothetical protein... 41 0.002
>ref|NP_570335.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73273.1| (AF338467) unknown [Cyanophage P60]
Length = 104
Score = 210 bits (535), Expect = 2e-054
Identities = 104/104 (100%), Positives = 104/104 (100%)
Query: 1 MGQEIGTSDDTVIARQLRLITEEFKEFNDATDNEPAANQLKELADLVYVAFQYAVARGWE 60
MGQEIGTSDDTVIARQLRLITEEFKEFNDATDNEPAANQLKELADLVYVAFQYAVARGWE
Sbjct: 1 MGQEIGTSDDTVIARQLRLITEEFKEFNDATDNEPAANQLKELADLVYVAFQYAVARGWE 60
Query: 61 LDEALDRVHESNLSKLVDGKPLRREDGKVLKGPNYKPPYVEDLV 104
LDEALDRVHESNLSKLVDGKPLRREDGKVLKGPNYKPPYVEDLV
Sbjct: 61 LDEALDRVHESNLSKLVDGKPLRREDGKVLKGPNYKPPYVEDLV 104
>pir||T35101 hypothetical protein SC4H2.02 SC4H2.02 - Streptomyces coelicolor
emb|CAA18318.1| (AL022268) hypothetical protein SC4H2.02 [Streptomyces coelicolor
A3(2)]
Length = 179
Score = 66.2 bits (160), Expect = 6e-011
Identities = 38/92 (41%), Positives = 54/92 (58%), Gaps = 1/92 (1%)
Query: 14 ARQLRLITEEFKEFNDATDNEPAANQLKELADLVYVAFQYAVARGWELDEALDRVHESNL 73
A + L+ EE E + + P ELAD+VYVA+ A+ G +LD + VH SN+
Sbjct: 70 AHRGELLAEEAAEVAEVSVRGPLDRLAHELADVVYVAYGTALVHGIDLDAVIAEVHRSNM 129
Query: 74 SKL-VDGKPLRREDGKVLKGPNYKPPYVEDLV 104
+KL DG+ RR DGKVLKG +Y+ P V ++
Sbjct: 130 TKLGPDGRVSRRADGKVLKGDHYEIPDVSGVL 161
>ref|NP_295953.1| (NC_001263) conserved hypothetical protein [Deinococcus
radiodurans]
pir||E75300 conserved hypothetical protein - Deinococcus radiodurans (strain
R1)
gb|AAF11776.1|AE002055_8 (AE002055) conserved hypothetical protein [Deinococcus radiodurans]
Length = 148
Score = 41.2 bits (95), Expect = 0.002
Identities = 34/101 (33%), Positives = 46/101 (44%), Gaps = 12/101 (11%)
Query: 4 EIGTSDDTVIARQLRLITEEFKEFNDATDNEPAANQLKELADLVYVAFQYAVARGWELDE 63
E+ D ++ARQ E A D P A+ ELADL+YV + G + D
Sbjct: 50 EVRAEIDHLLARQAA------GEALSAGDLAPLAH---ELADLLYVTYGALDQLGIDADA 100
Query: 64 ALDRVHESNLSKLVDGKPLRREDGKVLKGPNYKPPYVEDLV 104
VH +NLSK RR DGK LK ++P V ++
Sbjct: 101 VFAEVHRANLSK---ASGPRRADGKQLKPEGWRPADVRGVI 138
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.314 0.135 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 60,910,437
Number of Sequences: 922426
Number of extensions: 2152182
Number of successful extensions: 3714
Number of sequences better than 5.0e-02: 3
Number of HSP's better than 0.1 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 3710
Number of HSP's gapped (non-prelim): 3
length of query: 104
length of database: 289,484,438
effective HSP length: 80
effective length of query: 24
effective length of database: 215,690,358
effective search space: 5176568592
effective search space used: 5176568592
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf30 [6012-6112]
(99 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.321 0.136 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 58,762,166
Number of Sequences: 922426
Number of extensions: 1960301
Number of successful extensions: 3437
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3437
Number of HSP's gapped (non-prelim): 0
length of query: 99
length of database: 289,484,438
effective HSP length: 75
effective length of query: 24
effective length of database: 220,302,488
effective search space: 5287259712
effective search space used: 5287259712
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf31 [6200-6672]
(471 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570337.1| (NC_003390) ribonucleoside triphosphate re... 885 0.0
ref|NP_488075.1| (NC_003272) unknown protein [Nostoc sp. PC... 531 e-150
gb|AAA03078.1| (L20047) ribonucleoside triphosphate reducta... 86 1e-015
ref|NP_064758.1| (NC_002519) RP ribonucleotide reductase [R... 67 4e-010
ref|NP_046865.1| (NC_001900) putative ribonucleotide reduct... 53 8e-006
>ref|NP_570337.1| (NC_003390) ribonucleoside triphosphate reductase B [Cyanophage
P60]
gb|AAL73275.1| (AF338467) ribonucleoside triphosphate reductase B [Cyanophage P60]
Length = 446
Score = 885 bits (2286), Expect = 0.0
Identities = 425/446 (95%), Positives = 425/446 (95%)
Query: 26 MANHTRVFHSRPSLAEVTASVRKQFESGEGAIQYAPEAIARSNADVLDSLSARRDFIATY 85
MANHTRVFHSRPSLAEVTASVRKQFESGEGAIQYAPEAIARSNADVLDSLSARRDFIATY
Sbjct: 1 MANHTRVFHSRPSLAEVTASVRKQFESGEGAIQYAPEAIARSNADVLDSLSARRDFIATY 60
Query: 86 EDDPEAARALLSRLSGDVGRELDHRLHRYGLNPCGEILGKDFHCNLSEVHLNTLDPDDTD 145
EDDPEAARALLSRLSGDVGRELDHRLHRYGLNPCGEILGKDFHCNLSEVHLNTLDPDDTD
Sbjct: 61 EDDPEAARALLSRLSGDVGRELDHRLHRYGLNPCGEILGKDFHCNLSEVHLNTLDPDDTD 120
Query: 146 XXXXXXXXXXXXXXXXXXXXXTTERYQYSREQDPIVGVSFTGLFDFCVNKWGAEWLRWWS 205
TTERYQYSREQDPIVGVSFTGLFDFCVNKWGAEWLRWWS
Sbjct: 121 AQVKAFQAGALAAGALLHHKFTTERYQYSREQDPIVGVSFTGLFDFCVNKWGAEWLRWWS 180
Query: 206 LGRPFVPEFHEFVLGEARLLEFWKGVVKETLEAYCEKHGLKMPNRYTTVQPAGTKSLLTG 265
LGRPFVPEFHEFVLGEARLLEFWKGVVKETLEAYCEKHGLKMPNRYTTVQPAGTKSLLTG
Sbjct: 181 LGRPFVPEFHEFVLGEARLLEFWKGVVKETLEAYCEKHGLKMPNRYTTVQPAGTKSLLTG 240
Query: 266 ASPGWHPPKSARFIRRITFAREDPVALACIDYGYTVVPSQSSRDEEGNLLNDPWDERVKE 325
ASPGWHPPKSARFIRRITFAREDPVALACIDYGYTVVPSQSSRDEEGNLLNDPWDERVKE
Sbjct: 241 ASPGWHPPKSARFIRRITFAREDPVALACIDYGYTVVPSQSSRDEEGNLLNDPWDERVKE 300
Query: 326 WLVEIPTETVWANKPGCDQYEPNTFSVKAQFDFYMQVQKFWTTHNTSATLEFRENEIEEL 385
WLVEIPTETVWANKPGCDQYEPNTFSVKAQFDFYMQVQKFWTTHNTSATLEFRENEIEEL
Sbjct: 301 WLVEIPTETVWANKPGCDQYEPNTFSVKAQFDFYMQVQKFWTTHNTSATLEFRENEIEEL 360
Query: 386 SELIYRGCGDGYISAALLARFDANETFPRLPFEPIDRETYFRLQTEVNSFREMDFHDAMA 445
SELIYRGCGDGYISAALLARFDANETFPRLPFEPIDRETYFRLQTEVNSFREMDFHDAMA
Sbjct: 361 SELIYRGCGDGYISAALLARFDANETFPRLPFEPIDRETYFRLQTEVNSFREMDFHDAMA 420
Query: 446 KHFDAQHVEHGPAACDSDKCLFEEKK 471
KHFDAQHVEHGPAACDSDKCLFEEKK
Sbjct: 421 KHFDAQHVEHGPAACDSDKCLFEEKK 446
>ref|NP_488075.1| (NC_003272) unknown protein [Nostoc sp. PCC 7120]
dbj|BAB75734.1| (AP003595) ORF_ID:all4035~unknown protein [Nostoc sp. PCC 7120]
Length = 1172
Score = 531 bits (1368), Expect = e-150
Identities = 263/472 (55%), Positives = 327/472 (68%), Gaps = 4/472 (0%)
Query: 2 AKDNLWVCDSEGNWKIDPERDALRMANHTRVFHSRPSLAEVTASVRKQFESGEGAIQYAP 61
AKDNLW D G W+IDPERD+LRMANHTRVFH +P+L E +VRKQ+ SGEGAIQ+A
Sbjct: 699 AKDNLWQQDENGRWRIDPERDSLRMANHTRVFHRKPTLEECVDAVRKQYYSGEGAIQWAG 758
Query: 62 EAIARSNADVLDSLSARRDFIATYEDDPEAARALLSRLSGDVGRELDHRLHRYGLNPCGE 121
EA+AR+N D+L + + + +F+ YE A L R +EL HRL RY LNPCGE
Sbjct: 759 EAVARANIDLLPTQALKVEFLKAYEQGT-AKDWLQKRHPHFDEKELKHRLARYALNPCGE 817
Query: 122 ILGKDFHCNLSEVHLNTLDPDDTDXXXXXXXXXXXXXXXXXXXXXTTERYQYSREQDPIV 181
I+G +FHCNLSE+HLN +DP + RYQYSRE DPIV
Sbjct: 818 IIGSNFHCNLSEIHLNQIDPFNYKEQEEAFTAGALSVATLLNHKFPEPRYQYSRELDPIV 877
Query: 182 GVSFTGLFDFCVNKWGAEWLRWWSLGRPFVPEFHEFVLGEARLLEFWKGVVKETLEAYCE 241
GVSFTGLFDF V+ +GAEWL+WW GRP P+ F E + L W+ +V+ + YC+
Sbjct: 878 GVSFTGLFDFFVHAFGAEWLQWWEAGRPATPQGLAFKREEEKYLSSWREIVQRVVWDYCD 937
Query: 242 KHGLKMPNRYTTVQPAGTKSLLTGASPGWHPPKSARFIRRITFAREDPVALACIDYGYTV 301
+H +K PNR TTVQP+GTKSLLTGASPGWHPPK+ RFIRRITF + DPVALACIDYGY V
Sbjct: 938 RHNIKRPNRCTTVQPSGTKSLLTGASPGWHPPKAQRFIRRITFRKNDPVALACIDYGYNV 997
Query: 302 VPSQSSRDEEGNLLNDPWDERVKEWLVEIPTETVWANKPGCDQYEPNTFSVKAQFDFYMQ 361
+PSQS +DE+GNLLNDP D RV EWLVEIP WA+ PG D + + F+ AQ DFYMQ
Sbjct: 998 IPSQSDKDEQGNLLNDPLDPRVSEWLVEIPVAVSWADIPGADTIDISKFNAIAQMDFYMQ 1057
Query: 362 VQKFWTTHNTSATLEFRENEIEELSELIYRGC--GDGYISAALLARFDANETFPRLPFEP 419
VQKF+ THNTSAT+E RE+E+E L I++ +GYISAALLARFD ++TFPRLPFEP
Sbjct: 1058 VQKFYVTHNTSATIEVREHEVETLGTQIWQAIQNDEGYISAALLARFDDHQTFPRLPFEP 1117
Query: 420 IDRETYFRLQTEVNSFREM-DFHDAMAKHFDAQHVEHGPAACDSDKCLFEEK 470
I +E Y ++ EV R+ DF+ ++++ +E GPA CDSDKC+ E+
Sbjct: 1118 ISKEQYEQMVKEVVQRRKTDDFYAVLSRYDFGDLMEVGPAGCDSDKCMMPEQ 1169
>gb|AAA03078.1| (L20047) ribonucleoside triphosphate reductase [Lactobacillus
leichmannii]
Length = 739
Score = 85.5 bits (210), Expect = 1e-015
Identities = 95/364 (26%), Positives = 153/364 (41%), Gaps = 44/364 (12%)
Query: 115 GLNPCGEI-LGKDFHCNLSEVHLNTLDPDDTDXXXXXXXXXXXXXXXXXXXXXTTERYQY 173
G NPCGEI L CNL EV + D ++
Sbjct: 404 GTNPCGEISLANGEPCNLFEVFPLIAEEQGWDLQEVFALAARYAKRVTFSPYD----WEI 459
Query: 174 SRE---QDPIVGVSFTGLFDFCVNKWGAEWLRWWSLGRPFVPEFHEFV---LGEARLL-- 225
SRE ++ +G+S +G+ D+ + + G + + F PE HE + + + R +
Sbjct: 460 SREIIQKNRRIGISMSGIQDWLLTRLGNRVVTGFK--DDFDPETHEAIKVPVYDKRAIKM 517
Query: 226 --EFWKGVVKETLEAYCEKHGLKMPNRYTTVQPAGTKSLLTGASPGWHPPKSARFIRRIT 283
+ +K VVK + Y + G ++TTV+P+GT + L GAS G H A I+RI
Sbjct: 518 VDQLYKAVVKADQD-YSKTLGCNESIKHTTVKPSGTVAKLAGASEGMHFHYGAYLIQRIR 576
Query: 284 FAREDPVALACIDYGYTVVPSQSSRDEEGNLLNDPWDERVKEWLVEIPTETVWANKPGCD 343
F DP+ A GY E ++ + VE P + V A+ P +
Sbjct: 577 FQDSDPLLPALKACGYRT---------EADIYTE------NTTCVEFPIKAVGADNP--N 619
Query: 344 QYEPNTFSVKAQFDFYMQVQKFWTTHNTSATLEFRENEIEELSELI--YRGCGDGYISAA 401
T S+ QF +Q +W+ + S T+ F+++E +++ L+ YR S +
Sbjct: 620 FASAGTVSIAEQFATQAFLQTYWSDNAVSCTITFQDSEGDQVESLLRQYRFITK---STS 676
Query: 402 LLARFDANETFPRLPFEPIDRETYFRLQTEVNSFREMDFHDAMAKHFDAQHVEHGPAACD 461
LL F + + P EPID+ETY + E+ E F + D + V+ C+
Sbjct: 677 LLPYFGG--SLQQAPKEPIDKETYEKRSQEITGNVEEVFSQLNSDVKDLELVDQ--TDCE 732
Query: 462 SDKC 465
C
Sbjct: 733 GGAC 736
>ref|NP_064758.1| (NC_002519) RP ribonucleotide reductase [Roseophage SIO1]
gb|AAG02603.1|AF189021_22 (AF189021) Roseophage SIO1 complete genome
Length = 671
Score = 67.0 bits (162), Expect = 4e-010
Identities = 75/322 (23%), Positives = 121/322 (37%), Gaps = 45/322 (13%)
Query: 115 GLNPCGEIL-GKDFHCNLSEVHLNTLDPDDTDXXXXXXXXXXXXXXXXXXXXXTTERYQY 173
G+NPC EIL G CNL EV D R
Sbjct: 350 GVNPCAEILLGNKSFCNLVEVDWGKFLGDH-----------GGLERAVWLAARANYRQTC 398
Query: 174 SREQDPIVGVSFTGLFDFCVNKWGAEWLRWWSLGRPFVPEFHEFVLGE---ARLLEFWKG 230
D ++ S+ L +F LR +G + +F + G A +L+ +
Sbjct: 399 VNLDDGVLQRSWHELNEF---------LRLCGVGGTGIVKFLDHYTGRNNVASMLQSLRA 449
Query: 231 VVKETLEAYCEKHGLKMPNRYTTVQPAGTKSLLTGASPGWHPPKSARFIRRITFAREDPV 290
+ + E+ G MP TTV+P+GT S + + G H P I ITF+++DP+
Sbjct: 450 QAHKGANSMAEEFGTPMPKAVTTVKPSGTLSKIMDTTEGVHKPLGKYIINNITFSKDDPI 509
Query: 291 ALACIDYGYTVVPSQSSRDEEGNLLNDPWDERVKEWLVEIPTETVWANKPGCDQ--YEPN 348
+ GY V + P++ K + + + V ++ D+ N
Sbjct: 510 IASLEAAGYKV-------------FDKPFEPSSKLVAMPVCYDDVSFDEVETDRGTVHVN 556
Query: 349 TFSVKAQFDFYMQVQKFWTTHNTSATLEFRENEIEELSELIYRGCGDGYISAALLARFDA 408
S Q D Y + + HN S T+ + +E+ + + I D Y+ + + R D
Sbjct: 557 LESAVEQLDRYKLLMDNYVDHNCSVTISYDPSEVPAIIDWILTN-WDTYVGVSFIYRNDP 615
Query: 409 NET-----FPRLPFEPIDRETY 425
+T + LP E I E Y
Sbjct: 616 TKTAEDLGYAYLPQEVITEEAY 637
>ref|NP_046865.1| (NC_001900) putative ribonucleotide reductase; gp50
[Mycobacteriophage D29]
sp|O64240|VG50_BPMD2 PUTATIVE ADENOSYLCOBALAMIN-DEPENDENT RIBONUCLEOTIDE REDUCTASE
(GP50)
pir||G72805 probable ribonucleotide reductase protein - Mycobacterium phage D29
gb|AAC18490.1| (AF022214) putative ribonucleotide reductase; gp50
[Mycobacteriophage D29]
Length = 693
Score = 52.8 bits (125), Expect = 8e-006
Identities = 54/217 (24%), Positives = 88/217 (39%), Gaps = 23/217 (10%)
Query: 220 GEARLLEFWKGVVKET---LEAYCEKHGLKMPNRYTTVQPAGTKSLLTGASPGWHPPKSA 276
G+ R F + + E E + + + +P + TV P GT + + G S G HP S
Sbjct: 465 GDKRFTAFLREMAAEVDRAAEEFSHELRIPVPVKKRTVAPTGTIAKMPGVSEGIHPIFSR 524
Query: 277 RFIRRITFAREDPVALACIDYGYTVVPSQSSRDEEGNLLNDPWDERVKEWLVEIPTETVW 336
FIRRI F + +D + SQ + D ++ D +D+ W+VEIPT+
Sbjct: 525 YFIRRIRF--------SVLDNDQFLTASQYAADGY-HVEKDQYDKSGNTWVVEIPTKDTL 575
Query: 337 ----ANKPGCDQYE----PNTFSVKAQFDFYMQVQKFWTTHNTSATLEFRENEIEELSEL 388
A + G D + N ++ F Q W + S T + E +
Sbjct: 576 VEAVAARFGRDAEDIVESANELTLHQLLAFQALYQTCWADNAVSFTANVDPDAYEGVDVA 635
Query: 389 IYRGCGDGYISAALLARFDANETFPRLPFEPIDRETY 425
G I + + E+FP+ P+E I ++ Y
Sbjct: 636 ADLQRFSGLIKGSTIF---PEESFPQAPYERITKQQY 669
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.319 0.136 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 278,213,588
Number of Sequences: 922426
Number of extensions: 11474306
Number of successful extensions: 24012
Number of sequences better than 5.0e-02: 5
Number of HSP's better than 0.1 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 23998
Number of HSP's gapped (non-prelim): 6
length of query: 471
length of database: 289,484,438
effective HSP length: 124
effective length of query: 347
effective length of database: 175,103,614
effective search space: 60760954058
effective search space used: 60760954058
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 93 (40.4 bits)
Query= orf32 [6671-6730]
(58 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570338.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 117 2e-026
>ref|NP_570338.1| (NC_003390) unknown [Cyanophage P60]
ref|NP_570353.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73276.1| (AF338467) unknown [Cyanophage P60]
gb|AAL73291.1| (AF338467) unknown [Cyanophage P60]
Length = 58
Score = 117 bits (294), Expect = 2e-026
Identities = 58/58 (100%), Positives = 58/58 (100%)
Query: 1 MNDPIQQFTGDTQVAKLLSELENLFPPVTPTPTDEIASIMYRSGQRSVVEYIKQLLEN 58
MNDPIQQFTGDTQVAKLLSELENLFPPVTPTPTDEIASIMYRSGQRSVVEYIKQLLEN
Sbjct: 1 MNDPIQQFTGDTQVAKLLSELENLFPPVTPTPTDEIASIMYRSGQRSVVEYIKQLLEN 58
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.313 0.132 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 32,948,586
Number of Sequences: 922426
Number of extensions: 940996
Number of successful extensions: 2147
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2146
Number of HSP's gapped (non-prelim): 1
length of query: 58
length of database: 289,484,438
effective HSP length: 34
effective length of query: 24
effective length of database: 258,121,954
effective search space: 6194926896
effective search space used: 6194926896
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf33 [6739-6805]
(65 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.304 0.118 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,398,647
Number of Sequences: 922426
Number of extensions: 793728
Number of successful extensions: 1516
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1516
Number of HSP's gapped (non-prelim): 0
length of query: 65
length of database: 289,484,438
effective HSP length: 41
effective length of query: 24
effective length of database: 251,664,972
effective search space: 6039959328
effective search space used: 6039959328
T: 11
A: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf34 [6803-6967]
(163 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570340.1| (NC_003390) repressor protein [Cyanophage ... 293 3e-079
>ref|NP_570340.1| (NC_003390) repressor protein [Cyanophage P60]
gb|AAL73278.1| (AF338467) repressor protein [Cyanophage P60]
Length = 163
Score = 293 bits (751), Expect = 3e-079
Identities = 152/163 (93%), Positives = 152/163 (93%)
Query: 1 MAFQSEYRXXXXXXXXXXXKRKAFNDQKRAAARTEEMVRDAKTKTFSDSLTGKAQMTALK 60
MAFQSEYR KRKAFNDQKRAAARTEEMVRDAKTKTFSDSLTGKAQMTALK
Sbjct: 1 MAFQSEYRGSTTGFGFGSFKRKAFNDQKRAAARTEEMVRDAKTKTFSDSLTGKAQMTALK 60
Query: 61 LQQAEAKHRGDMMKSISGIVGQTATGIAKVHELNERAKRQAELDKQRQEAEAWDEGYFDF 120
LQQAEAKHRGDMMKSISGIVGQTATGIAKVHELNERAKRQAELDKQRQEAEAWDEGYFDF
Sbjct: 61 LQQAEAKHRGDMMKSISGIVGQTATGIAKVHELNERAKRQAELDKQRQEAEAWDEGYFDF 120
Query: 121 IMDETATELPPELQAEDEALSDQEIQINAGARASAEVSNEVND 163
IMDETATELPPELQAEDEALSDQEIQINAGARASAEVSNEVND
Sbjct: 121 IMDETATELPPELQAEDEALSDQEIQINAGARASAEVSNEVND 163
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.309 0.123 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 67,431,489
Number of Sequences: 922426
Number of extensions: 2313568
Number of successful extensions: 7495
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 7494
Number of HSP's gapped (non-prelim): 1
length of query: 163
length of database: 289,484,438
effective HSP length: 111
effective length of query: 52
effective length of database: 187,095,152
effective search space: 9728947904
effective search space used: 9728947904
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 86 (37.7 bits)
Query= orf35 [6966-7105]
(138 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570341.1| (NC_003390) expression site-associated pro... 273 2e-073
gb|AAK30612.1|AF350283_1 (AF350283) fibroin 3 [Plectreurys ... 38 0.015
ref|NP_600753.1| (NC_003450) COG0840:Methyl-accepting chemo... 38 0.015
>ref|NP_570341.1| (NC_003390) expression site-associated protein [Cyanophage P60]
gb|AAL73279.1| (AF338467) expression site-associated protein [Cyanophage P60]
Length = 138
Score = 273 bits (698), Expect = 2e-073
Identities = 138/138 (100%), Positives = 138/138 (100%)
Query: 1 MRAYQDQLKYNMDAQNSASMEQQTKLDEARTKAAFKSQEIYAKQIGAKGSVLATGRTGQS 60
MRAYQDQLKYNMDAQNSASMEQQTKLDEARTKAAFKSQEIYAKQIGAKGSVLATGRTGQS
Sbjct: 1 MRAYQDQLKYNMDAQNSASMEQQTKLDEARTKAAFKSQEIYAKQIGAKGSVLATGRTGQS 60
Query: 61 VGLLSMDAERQGGMQQAEQDAMVKSAARSAEVGNQVASTQRANADADAWNSLAQSPLHPA 120
VGLLSMDAERQGGMQQAEQDAMVKSAARSAEVGNQVASTQRANADADAWNSLAQSPLHPA
Sbjct: 61 VGLLSMDAERQGGMQQAEQDAMVKSAARSAEVGNQVASTQRANADADAWNSLAQSPLHPA 120
Query: 121 LVASPGGGPIGTPTYNWF 138
LVASPGGGPIGTPTYNWF
Sbjct: 121 LVASPGGGPIGTPTYNWF 138
>gb|AAK30612.1|AF350283_1 (AF350283) fibroin 3 [Plectreurys tristis]
Length = 2016
Score = 38.1 bits (87), Expect = 0.015
Identities = 29/99 (29%), Positives = 38/99 (38%)
Query: 17 SASMEQQTKLDEARTKAAFKSQEIYAKQIGAKGSVLATGRTGQSVGLLSMDAERQGGMQQ 76
S+S+ A +Q A A+ S T T S S DA QQ
Sbjct: 831 SSSLSTARATSSANAYQEQTTQSSAAASAAAQSSEYQTQNTQSSASAASSDASTSYQTQQ 890
Query: 77 AEQDAMVKSAARSAEVGNQVASTQRANADADAWNSLAQS 115
+ DA S A + NQ STQ + A + + NS QS
Sbjct: 891 SYSDASAASVAAESTSANQAQSTQSSAAASSSTNSAYQS 929
>ref|NP_600753.1| (NC_003450) COG0840:Methyl-accepting chemotaxis protein
[Corynebacterium glutamicum]
Length = 604
Score = 38.1 bits (87), Expect = 0.015
Identities = 36/122 (29%), Positives = 60/122 (48%), Gaps = 4/122 (3%)
Query: 6 DQLKYNMDAQNSASMEQQTKLDEARTKAAFKSQEIYAKQIGAKGSVLATGRTGQSVGLLS 65
+Q + +A+ A+ E++ + DEA +AA ++QE A+Q A A + +
Sbjct: 258 EQARIQAEAEAQAAAEEKRRADEAAAQAAAEAQEA-AQQAQAAEEAQAAQAAETAQAQAA 316
Query: 66 MDAERQGGM-QQAEQDAMVKSAARSAEVGNQVASTQ-RANADADAWN-SLAQSPLHPALV 122
AE Q QA+ +A ++AA+ Q A+ Q + ADA A N + AQ+ AL
Sbjct: 317 QAAETQAAQAAQAQAEANDRAAAQQRAAEAQAAAEQAQREADAQAANDAQAQALREQALT 376
Query: 123 AS 124
A+
Sbjct: 377 AA 378
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.309 0.122 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 68,576,127
Number of Sequences: 922426
Number of extensions: 2269048
Number of successful extensions: 8055
Number of sequences better than 5.0e-02: 3
Number of HSP's better than 0.1 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 8053
Number of HSP's gapped (non-prelim): 4
length of query: 138
length of database: 289,484,438
effective HSP length: 114
effective length of query: 24
effective length of database: 184,327,874
effective search space: 4423868976
effective search space used: 4423868976
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 83 (36.6 bits)
Query= orf36 [7097-7179]
(81 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.326 0.146 4.65e-269
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,690,054
Number of Sequences: 922426
Number of extensions: 217725
Number of successful extensions: 378
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 378
Number of HSP's gapped (non-prelim): 0
length of query: 81
length of database: 289,484,438
effective HSP length: 57
effective length of query: 24
effective length of database: 236,906,156
effective search space: 5685747744
effective search space used: 5685747744
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 84 (37.0 bits)
Query= orf37 [7174-7329]
(154 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570342.1| (NC_003390) polyketide synthase [Cyanophag... 282 8e-076
>ref|NP_570342.1| (NC_003390) polyketide synthase [Cyanophage P60]
gb|AAL73280.1| (AF338467) polyketide synthase [Cyanophage P60]
Length = 154
Score = 282 bits (721), Expect = 8e-076
Identities = 141/154 (91%), Positives = 141/154 (91%)
Query: 1 MPQSDNNRPATQADITELIQNIRQEDREEIEGLGHSVLALHLSLDVSENVTAMVAPDGSI 60
MPQSDNNRPATQADITELIQNIRQEDREEIEGLGHSVLALHLSLDVSENVTAMVAPDGSI
Sbjct: 1 MPQSDNNRPATQADITELIQNIRQEDREEIEGLGHSVLALHLSLDVSENVTAMVAPDGSI 60
Query: 61 AGVAGLVDMGNRVGEIWMVCTKAIERNPIALLKGAKWWLPKVSKNYDILYNIVSKDNLVH 120
AGVAGLVDMGNRVGEIWMVCTKAIERNPIALLKGAKWWLPKVSKNYDILYNIVSKDNLVH
Sbjct: 61 AGVAGLVDMGNRVGEIWMVCTKAIERNPIALLKGAKWWLPKVSKNYDILYNIVSKDNLVH 120
Query: 121 XXXXXXXXXXXXXYVQPAPLYKPYIEFVKKCASS 154
YVQPAPLYKPYIEFVKKCASS
Sbjct: 121 RRLLKKLGFRGLRYVQPAPLYKPYIEFVKKCASS 154
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.316 0.134 0.000
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 81,344,038
Number of Sequences: 922426
Number of extensions: 2863425
Number of successful extensions: 6505
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6504
Number of HSP's gapped (non-prelim): 1
length of query: 154
length of database: 289,484,438
effective HSP length: 110
effective length of query: 44
effective length of database: 188,017,578
effective search space: 8272773432
effective search space used: 8272773432
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 85 (37.4 bits)
Query= orf38 [7323-7539]
(215 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570343.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 446 e-124
>ref|NP_570343.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73281.1| (AF338467) unknown [Cyanophage P60]
Length = 284
Score = 446 bits (1146), Expect = e-124
Identities = 215/215 (100%), Positives = 215/215 (100%)
Query: 1 MMDQDGDPITAGEFTYLPRVDKMIDSTNTDYLTVVGSDFRETTYQVATNWDDFAGGERLI 60
MMDQDGDPITAGEFTYLPRVDKMIDSTNTDYLTVVGSDFRETTYQVATNWDDFAGGERLI
Sbjct: 70 MMDQDGDPITAGEFTYLPRVDKMIDSTNTDYLTVVGSDFRETTYQVATNWDDFAGGERLI 129
Query: 61 TTIYTDNDAGDYDFHVMQPDGLFKVPNGRPFKMGLTYQMELDLPNFFIKNDGRPDRISDV 120
TTIYTDNDAGDYDFHVMQPDGLFKVPNGRPFKMGLTYQMELDLPNFFIKNDGRPDRISDV
Sbjct: 130 TTIYTDNDAGDYDFHVMQPDGLFKVPNGRPFKMGLTYQMELDLPNFFIKNDGRPDRISDV 189
Query: 121 MVQGVYFDMYQSSGISVFVNLQGYEPYAGYLTPIDSDAYNADEAAMRVSGTEYMGMAAPG 180
MVQGVYFDMYQSSGISVFVNLQGYEPYAGYLTPIDSDAYNADEAAMRVSGTEYMGMAAPG
Sbjct: 190 MVQGVYFDMYQSSGISVFVNLQGYEPYAGYLTPIDSDAYNADEAAMRVSGTEYMGMAAPG 249
Query: 181 SQTFVTLTSANPYPSGLTSYSFQGIYNKRGYATIR 215
SQTFVTLTSANPYPSGLTSYSFQGIYNKRGYATIR
Sbjct: 250 SQTFVTLTSANPYPSGLTSYSFQGIYNKRGYATIR 284
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.318 0.138 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 134,048,509
Number of Sequences: 922426
Number of extensions: 5904051
Number of successful extensions: 10389
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 10388
Number of HSP's gapped (non-prelim): 1
length of query: 215
length of database: 289,484,438
effective HSP length: 115
effective length of query: 100
effective length of database: 183,405,448
effective search space: 18340544800
effective search space used: 18340544800
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 88 (38.5 bits)
Query= orf39 [7565-8246]
(680 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570344.1| (NC_003390) tail protein A [Cyanophage P60... 1380 0.0
ref|NP_042000.1| (NC_001604) gene 12, tail protein [Enterob... 140 5e-032
ref|NP_523337.1| (NC_003298) tail tubular protein B [Bacter... 138 2e-031
ref|NP_052111.1| (NC_001271) tail tubular protein B [Bacter... 135 1e-030
>ref|NP_570344.1| (NC_003390) tail protein A [Cyanophage P60]
gb|AAL73282.1| (AF338467) tail protein A [Cyanophage P60]
Length = 680
Score = 1380 bits (3573), Expect = 0.0
Identities = 680/680 (100%), Positives = 680/680 (100%)
Query: 1 MAAVEQMVPNLLGGISQQPDPLKLPGQVKQARNVQLDPTFGALKRPGTELIMQVTGIPKR 60
MAAVEQMVPNLLGGISQQPDPLKLPGQVKQARNVQLDPTFGALKRPGTELIMQVTGIPKR
Sbjct: 1 MAAVEQMVPNLLGGISQQPDPLKLPGQVKQARNVQLDPTFGALKRPGTELIMQVTGIPKR 60
Query: 61 AKWIPIMRDAREHYYVAIYREGANESGDLRIRVFDLKAGVERAVSFVGGEVEEYFPGDET 120
AKWIPIMRDAREHYYVAIYREGANESGDLRIRVFDLKAGVERAVSFVGGEVEEYFPGDET
Sbjct: 61 AKWIPIMRDAREHYYVAIYREGANESGDLRIRVFDLKAGVERAVSFVGGEVEEYFPGDET 120
Query: 121 DWEAIRSLTIGDYTFLSNPNVQPTTWSRSFSRRPEGLVTIGAAGYGTSYIVDFATEDSGQ 180
DWEAIRSLTIGDYTFLSNPNVQPTTWSRSFSRRPEGLVTIGAAGYGTSYIVDFATEDSGQ
Sbjct: 121 DWEAIRSLTIGDYTFLSNPNVQPTTWSRSFSRRPEGLVTIGAAGYGTSYIVDFATEDSGQ 180
Query: 181 QRRWAVQEMQAPKTKRKKGDGSPDEAGETTVNNWNGTGLSFRVKVEARAFLVDDGEEYGH 240
QRRWAVQEMQAPKTKRKKGDGSPDEAGETTVNNWNGTGLSFRVKVEARAFLVDDGEEYGH
Sbjct: 181 QRRWAVQEMQAPKTKRKKGDGSPDEAGETTVNNWNGTGLSFRVKVEARAFLVDDGEEYGH 240
Query: 241 NYIPYVTLLTPGNNTSPFPDTIRVDVSGEGWDIKVTKQIQSKVYANLGTAQFTTPVDQSG 300
NYIPYVTLLTPGNNTSPFPDTIRVDVSGEGWDIKVTKQIQSKVYANLGTAQFTTPVDQSG
Sbjct: 241 NYIPYVTLLTPGNNTSPFPDTIRVDVSGEGWDIKVTKQIQSKVYANLGTAQFTTPVDQSG 300
Query: 301 GGASTSDIVTGLSAAINGLGTFTAESIGNVIRVRYSDPTRTDEFTMSARGGTSGTGLESI 360
GGASTSDIVTGLSAAINGLGTFTAESIGNVIRVRYSDPTRTDEFTMSARGGTSGTGLESI
Sbjct: 301 GGASTSDIVTGLSAAINGLGTFTAESIGNVIRVRYSDPTRTDEFTMSARGGTSGTGLESI 360
Query: 361 KYSVDTLAELPTKCWNDYQVAVRNTQDTEVDDYYVKFETDVEDADVPGSGYWVETVKNGD 420
KYSVDTLAELPTKCWNDYQVAVRNTQDTEVDDYYVKFETDVEDADVPGSGYWVETVKNGD
Sbjct: 361 KYSVDTLAELPTKCWNDYQVAVRNTQDTEVDDYYVKFETDVEDADVPGSGYWVETVKNGD 420
Query: 421 DGGLVDDTMPHVLVRNALGDFTFSSLNNSSYGKTWADRSVGSEDTNPHPTFTESGNGIYG 480
DGGLVDDTMPHVLVRNALGDFTFSSLNNSSYGKTWADRSVGSEDTNPHPTFTESGNGIYG
Sbjct: 421 DGGLVDDTMPHVLVRNALGDFTFSSLNNSSYGKTWADRSVGSEDTNPHPTFTESGNGIYG 480
Query: 481 MFMYKNRLGFLTQDAVIMSQVGDYFNFYATSGVTISDADPIDMATSDTKPVKLEAAISST 540
MFMYKNRLGFLTQDAVIMSQVGDYFNFYATSGVTISDADPIDMATSDTKPVKLEAAISST
Sbjct: 481 MFMYKNRLGFLTQDAVIMSQVGDYFNFYATSGVTISDADPIDMATSDTKPVKLEAAISST 540
Query: 541 SGAILFGNQAQFRLSSPDESFGPKTATLDKISNYTYESKADPVQTGVSMIFPTNMGTYSS 600
SGAILFGNQAQFRLSSPDESFGPKTATLDKISNYTYESKADPVQTGVSMIFPTNMGTYSS
Sbjct: 541 SGAILFGNQAQFRLSSPDESFGPKTATLDKISNYTYESKADPVQTGVSMIFPTNMGTYSS 600
Query: 601 VYELSTESAKGTPVIEDSSRVIPRLIPSGLTWSTASMNNDTVFFGNAKKGRNVYVFRFFN 660
VYELSTESAKGTPVIEDSSRVIPRLIPSGLTWSTASMNNDTVFFGNAKKGRNVYVFRFFN
Sbjct: 601 VYELSTESAKGTPVIEDSSRVIPRLIPSGLTWSTASMNNDTVFFGNAKKGRNVYVFRFFN 660
Query: 661 EGQERKVAGWTTWYYEDQDH 680
EGQERKVAGWTTWYYEDQDH
Sbjct: 661 EGQERKVAGWTTWYYEDQDH 680
>ref|NP_042000.1| (NC_001604) gene 12, tail protein [Enterobacteria phage T7]
sp|P03747|VTTB_BPT7 TAIL TUBULAR PROTEIN B
pir||TLBPB7 tail tubular protein B - phage T7
emb|CAA24430.1| (V01146) gene 12, tail protein [Enterobacteria phage T7]
Length = 794
Score = 140 bits (353), Expect = 5e-032
Identities = 88/344 (25%), Positives = 165/344 (47%), Gaps = 21/344 (6%)
Query: 331 IRVRYSDPTRTDEFTMSARGGTSGTGLESIKYSVDTLAELPTKCWNDYQVAVRNTQDTEV 390
I V + D FT + G + + + + + ++LP N Y V +
Sbjct: 220 IHVTAPSGQQIDSFT--TKDGYADQLINPVTHYAQSFSKLPPNAPNGYMVKIVGDASKSA 277
Query: 391 DDYYVKFETDVEDADVPGSGYWVETVKNGDDGGLVDDTMPHVLVRNALGDFTFSSLNNSS 450
D YYV+++ + + W ET+ + ++ +TMPH LVR A G+F F L
Sbjct: 278 DQYYVRYDAERK--------VWTETLGWNTEDQVLWETMPHALVRAADGNFDFKWLE--- 326
Query: 451 YGKTWADRSVGSEDTNPHPTFTESGNGIYGMFMYKNRLGFLTQDAVIMSQVGDYFNFYAT 510
W+ +S G DTNP P+F G+ I +F ++NRLGFL+ + +I+S+ YFNFY
Sbjct: 327 ----WSPKSCGDVDTNPWPSFV--GSSINDVFFFRNRLGFLSGENIILSRTAKYFNFYPA 380
Query: 511 SGVTISDADPIDMATSDTKPVKLEAAISSTSGAILFGNQAQFRLSSPDESFGPKTATLDK 570
S +SD DPID+A S + L+ A+ + +++ ++AQF L++ + K+ L+
Sbjct: 381 SIANLSDDDPIDVAVSTNRIAILKYAVPFSEELLIWSDEAQFVLTA-SGTLTSKSVELNL 439
Query: 571 ISNYTYESKADPVQTGVSMIFPTNMGTYSSVYE-LSTESAKGTPVIEDSSRVIPRLIPSG 629
+ + + +A P G ++ F + +++S++ + + ED + +P IP+G
Sbjct: 440 TTQFDVQDRARPFGIGRNVYFASPRSSFTSIHRYYAVQDVSSVKNAEDITSHVPNYIPNG 499
Query: 630 LTWSTASMNNDTVFFGNAKKGRNVYVFRFFNEGQERKVAGWTTW 673
+ S + + +++++F +E + W+ W
Sbjct: 500 VFSICGSGTENFCSVLSHGDPSKIFMYKFLYLNEELRQQSWSHW 543
Score = 76.3 bits (186), Expect = 1e-012
Identities = 74/252 (29%), Positives = 106/252 (41%), Gaps = 35/252 (13%)
Query: 1 MAAVEQMVPNLLGGISQQPDPLKLPGQVKQARNVQLDPTFGALKRPGTELIMQV--TGIP 58
MA + Q + NL GGISQQPD L+ P Q + N T G KRP + + G
Sbjct: 1 MALISQSIKNLKGGISQQPDILRYPDQGSRQVNGWSSETEGLQKRPPLVFLNTLGDNGAL 60
Query: 59 KRAKWIPIM-RDAREHYYVAIYREGANESGDLRIRVFDLKAGVERAVSFVGGEVEEYFPG 117
+A +I ++ RD E YY G IRVFDL +G E+ V + G
Sbjct: 61 GQAPYIHLINRDEHEQYYAVFTGSG--------IRVFDL-SGNEKQVRYPNGSNYIKTAN 111
Query: 118 DETDWEAIRSLTIGDYTFLSNPNV--QPTTWS---RSFSRRPEGLVTIGAAGYGTSYIVD 172
D +R +T+ DYTF+ N NV Q T S +++ +GL+ + YG IV
Sbjct: 112 PRND---LRMVTVADYTFIVNRNVVAQKNTKSVNLPNYNPNQDGLINVRGGQYGRELIVH 168
Query: 173 FATEDSGQQRRWAVQEMQAPKTKRKKGDGSPDEAGETTVNNWNGTGLSFRVKVEARAFLV 232
+D K K DGS E T W L+ +++ + V
Sbjct: 169 INGKD---------------VAKYKIPDGSQPEHVNNTDAQWLAEELAKQMRTNLSDWTV 213
Query: 233 DDGEEYGHNYIP 244
+ G+ + H P
Sbjct: 214 NVGQGFIHVTAP 225
>ref|NP_523337.1| (NC_003298) tail tubular protein B [Bacteriophage T3]
emb|CAC86300.1| (AJ318471) tail tubular protein B [Bacteriophage T3]
Length = 801
Score = 138 bits (348), Expect = 2e-031
Identities = 89/341 (26%), Positives = 162/341 (47%), Gaps = 19/341 (5%)
Query: 338 PTRTDEFTMSARGGTSGTGLESIKYSVDTLAELPTKCWNDYQVAVRNTQDTEVDDYYVKF 397
P + + + + G + + + + + +LP + Y V + D YYV+F
Sbjct: 232 PNNDNVWGLQTKDGYADQLINPVTHYTQSFQKLPINAPDGYIVKIVGDTSKTADQYYVRF 291
Query: 398 ETDVEDADVPGSGYWVETVKNGDDGGLVDDTMPHVLVRNALGDFTFSSLNNSSYGKTWAD 457
+ + + WVET+ L TMP LVR + G+F F L W
Sbjct: 292 DLNRK--------VWVETIGWNTRTHLHYHTMPWALVRASDGNFDFKYLE-------WGA 336
Query: 458 RSVGSEDTNPHPTFTESGNGIYGMFMYKNRLGFLTQDAVIMSQVGDYFNFYATSGVTISD 517
R+VG + TNP+P+FT G I +F ++NRLGFL+ + +I+S+ YFNF+ S SD
Sbjct: 337 RTVGDDTTNPYPSFT--GQTINDIFFFRNRLGFLSGENIILSRTSKYFNFFPASVSNYSD 394
Query: 518 ADPIDMATSDTKPVKLEAAISSTSGAILFGNQAQFRLSSPDESFGPKTATLDKISNYTYE 577
DPID+A S + L+ A+ + +L+ +QAQF L++ D ++ L+ + + +
Sbjct: 395 DDPIDVAVSHDRVSTLKYAVPFSEELLLWSDQAQFVLTASD-ILSSRSVGLNLTTQFDVQ 453
Query: 578 SKADPVQTGVSMIFPTNMGTYSSVYE-LSTESAKGTPVIEDSSRVIPRLIPSGLTWSTAS 636
+A P G ++ F + +++S+ + + ED + +P IP+G+ + +
Sbjct: 454 DRARPHGVGRNVYFSSPRASFTSINRYYAVQDVSSVKNAEDMTAHVPNYIPNGVFSISGT 513
Query: 637 MNNDTVFFGNAKKGRNVYVFRFFNEGQERKVAGWTTWYYED 677
+ V + VY+++F +E + W+ W + D
Sbjct: 514 TAENFVAILTSGAPNRVYIYKFLYIDEEIRQQSWSHWDFGD 554
Score = 53.1 bits (126), Expect = 1e-005
Identities = 71/269 (26%), Positives = 111/269 (40%), Gaps = 49/269 (18%)
Query: 1 MAAVEQMVPNLLGGISQQPDPLKLPGQVKQARNVQLDPTFGALKRPGTELIMQVTGIPKR 60
MA + Q + NL GGISQQPD L+ Q N + G KRP + ++ G
Sbjct: 1 MALISQSIKNLKGGISQQPDILRFTEQGSVQINGWSSESEGIQKRP-PMIHLKTLGTAGY 59
Query: 61 AKWIP----IMRDAREHYYVAIYREGANESGDLRIRVFDLKAGVERAVSFVGGEVEEYFP 116
P I RD E Y+V E I+VFDL G E V V P
Sbjct: 60 VGAQPYVHLINRDEFEQYFVVFTGED--------IKVFDLD-GKEYQVRGDRSYVRTANP 110
Query: 117 GDETDWEAIRSLTIGDYTFLSNPNVQPTTWSRS-----FSRRPEGLVTIGAAGYGTSYIV 171
++ +R +T+ DYTF++N V + +S F + + L+ + YG +
Sbjct: 111 RED-----LRMVTVADYTFVTNRKVVVQSNDQSVNLPGFKDQGDALINVRGGQYGRRLSI 165
Query: 172 DFATEDSGQQRRWAVQEMQAPKTKRKKGDGSPDEAGETTVNNWNGTGLSFRVKVEARAFL 231
+F +G +R AVQ PD + VN +G ++ ++ + R L
Sbjct: 166 EF----NGAERA-AVQ--------------LPDGSQPAHVNEVDGQAIAEKLAAQLRNNL 206
Query: 232 VD-----DGEEYGHNYIP-YVTLLTPGNN 254
+ D ++ N P ++ +L P N+
Sbjct: 207 GNPNNDQDPNKWRFNVGPGFIHILAPNND 235
>ref|NP_052111.1| (NC_001271) tail tubular protein B [Bacteriophage phiYeO3-12]
emb|CAB63632.1| (AJ251805) tail tubular protein B [Bacteriophage phiYeO3-12]
Length = 801
Score = 135 bits (341), Expect = 1e-030
Identities = 87/341 (25%), Positives = 160/341 (46%), Gaps = 19/341 (5%)
Query: 338 PTRTDEFTMSARGGTSGTGLESIKYSVDTLAELPTKCWNDYQVAVRNTQDTEVDDYYVKF 397
P + + + + G + + + + + +LP + Y V + D YYV+F
Sbjct: 232 PNNDNVWGLQTKDGYADQLINPVTHYTQSFQKLPINAPDGYIVKIVGDTSKTADQYYVRF 291
Query: 398 ETDVEDADVPGSGYWVETVKNGDDGGLVDDTMPHVLVRNALGDFTFSSLNNSSYGKTWAD 457
+ + + WVET+ L TMP LVR + G+F F L W
Sbjct: 292 DLNRK--------VWVETIGWNTRTHLYYHTMPWALVRASDGNFDFKVLE-------WGA 336
Query: 458 RSVGSEDTNPHPTFTESGNGIYGMFMYKNRLGFLTQDAVIMSQVGDYFNFYATSGVTISD 517
R+VG + TNP+P+FT G I +F ++NRLGFL+ + +I+S+ YFNF+ S SD
Sbjct: 337 RTVGDDTTNPYPSFT--GQTINDIFFFRNRLGFLSGENIILSRTSKYFNFFPASVSNYSD 394
Query: 518 ADPIDMATSDTKPVKLEAAISSTSGAILFGNQAQFRLSSPDESFGPKTATLDKISNYTYE 577
DPID+A S + L+ A+ + +L+ +QAQF L++ ++ L+ + + +
Sbjct: 395 DDPIDVAVSHNRVSTLKYAVPFSEELLLWSDQAQFVLTA-SGILSSRSVELNLTTQFDVQ 453
Query: 578 SKADPVQTGVSMIFPTNMGTYSSVYE-LSTESAKGTPVIEDSSRVIPRLIPSGLTWSTAS 636
+A P G ++ F + +++S+ + + ED + +P IP+G+ + +
Sbjct: 454 DRARPHGVGRNVYFASPRASFTSINRYYAVQDVSSVKNAEDMTAHVPNYIPNGVFSISGT 513
Query: 637 MNNDTVFFGNAKKGRNVYVFRFFNEGQERKVAGWTTWYYED 677
+ + VY+++F +E + W+ W + D
Sbjct: 514 TAENFAAILTSGAPNRVYIYKFLYIDEEIRQQSWSHWDFGD 554
Score = 53.1 bits (126), Expect = 1e-005
Identities = 69/268 (25%), Positives = 112/268 (41%), Gaps = 47/268 (17%)
Query: 1 MAAVEQMVPNLLGGISQQPDPLKLPGQVKQARNVQLDPTFGALKRPGTELIMQV--TGIP 58
MA + Q + NL GGISQQPD L+ Q N + G KRP + + G
Sbjct: 1 MALISQSIKNLKGGISQQPDILRFAEQGSVQINGWSSESEGLQKRPPMIHLKTLGPAGYV 60
Query: 59 KRAKWIPIM-RDAREHYYVAIYREGANESGDLRIRVFDLKAGVERAVSFVGGEVEEYFPG 117
++ ++ RD E Y+V E I+VFDL G E V V P
Sbjct: 61 GAQPYVHLINRDEFEQYFVVFTGED--------IKVFDLD-GKEYQVRGDRSYVRTANPR 111
Query: 118 DETDWEAIRSLTIGDYTFLSNPNVQPTTWSRS-----FSRRPEGLVTIGAAGYGTSYIVD 172
++ +R +T+ DYTF++N V + +S F + + L+ + YG ++
Sbjct: 112 ED-----LRMITVADYTFVTNRKVVVQSNDQSVNLPGFKDQGDALINVRGGQYGRRLSIE 166
Query: 173 FATEDSGQQRRWAVQEMQAPKTKRKKGDGSPDEAGETTVNNWNGTGLSFRVKVEARAFLV 232
F +G +R AVQ PD + VN +G ++ ++ + R L
Sbjct: 167 F----NGAERA-AVQ--------------LPDGSQPAHVNEVDGQAIAEKLAAQLRNNLG 207
Query: 233 D-----DGEEYGHNYIP-YVTLLTPGNN 254
+ D ++ N P ++ +L P N+
Sbjct: 208 NPNNDQDPNKWRFNVGPGFIHILAPNND 235
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.314 0.133 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 419,976,975
Number of Sequences: 922426
Number of extensions: 19260684
Number of successful extensions: 31791
Number of sequences better than 5.0e-02: 4
Number of HSP's better than 0.1 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 31770
Number of HSP's gapped (non-prelim): 7
length of query: 680
length of database: 289,484,438
effective HSP length: 127
effective length of query: 553
effective length of database: 172,336,336
effective search space: 95301993808
effective search space used: 95301993808
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 94 (40.8 bits)
Query= orf40 [8246-8372]
(125 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570345.1| (NC_003390) tail tubular protein B [Cyanop... 266 3e-071
ref|NP_523336.1| (NC_003298) tail tubular protein A [Bacter... 56 6e-008
ref|NP_052110.1| (NC_001271) tail tubular protein A [Bacter... 55 1e-007
ref|NP_041999.1| (NC_001604) gene 11, tail protein [Enterob... 54 3e-007
>ref|NP_570345.1| (NC_003390) tail tubular protein B [Cyanophage P60]
gb|AAL73283.1| (AF338467) tail tubular protein B [Cyanophage P60]
Length = 125
Score = 266 bits (680), Expect = 3e-071
Identities = 125/125 (100%), Positives = 125/125 (100%)
Query: 1 MWCHGISVGPQTYDVVIRNGKLYDKRNHTYKFDVDELKLDIVWLFDFEDIPNAIRNYITI 60
MWCHGISVGPQTYDVVIRNGKLYDKRNHTYKFDVDELKLDIVWLFDFEDIPNAIRNYITI
Sbjct: 1 MWCHGISVGPQTYDVVIRNGKLYDKRNHTYKFDVDELKLDIVWLFDFEDIPNAIRNYITI 60
Query: 61 RASNLFAMRTTGSTEIAKYGQMEEQQARATALDYETQQGDWNVFQNPDGTRSFRGYVPTQ 120
RASNLFAMRTTGSTEIAKYGQMEEQQARATALDYETQQGDWNVFQNPDGTRSFRGYVPTQ
Sbjct: 61 RASNLFAMRTTGSTEIAKYGQMEEQQARATALDYETQQGDWNVFQNPDGTRSFRGYVPTQ 120
Query: 121 TLWRF 125
TLWRF
Sbjct: 121 TLWRF 125
>ref|NP_523336.1| (NC_003298) tail tubular protein A [Bacteriophage T3]
emb|CAC86299.1| (AJ318471) tail tubular protein A [Bacteriophage T3]
Length = 196
Score = 56.2 bits (134), Expect = 6e-008
Identities = 30/88 (34%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 16 VIRNGKLYDKRNHTYKFDVDELKLDIVWLFDFEDIPNAIRNYITIRASNLFAMRTTGSTE 75
V R G LYD+ T +F ++++++ L +F+++P RNYI +AS F R G+ E
Sbjct: 97 VNRGGYLYDRSAKTDRFP-SGVQVNLIRLREFDEMPECFRNYIVTKASRQFNNRFFGAPE 155
Query: 76 IAKYGQMEEQQARATALDYETQQGDWNV 103
+ Q EEQ+A + +YE G++N+
Sbjct: 156 VDGVLQEEEQEAWSACFEYELDYGNYNM 183
>ref|NP_052110.1| (NC_001271) tail tubular protein A [Bacteriophage phiYeO3-12]
emb|CAB63631.1| (AJ251805) tail tubular protein A [Bacteriophage phiYeO3-12]
Length = 196
Score = 55.1 bits (131), Expect = 1e-007
Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 1/86 (1%)
Query: 18 RNGKLYDKRNHTYKFDVDELKLDIVWLFDFEDIPNAIRNYITIRASNLFAMRTTGSTEIA 77
R G LYD+ T +F ++++++ L +F+++P RNYI +AS F R G+ E+
Sbjct: 99 RGGYLYDRSAKTDRFP-SGVQVNLIRLREFDEMPECFRNYIVTKASRQFNNRFFGAPEVD 157
Query: 78 KYGQMEEQQARATALDYETQQGDWNV 103
Q EEQ+A +YE G++N+
Sbjct: 158 GVLQEEEQEAWRACFEYELDYGNYNM 183
>ref|NP_041999.1| (NC_001604) gene 11, tail protein [Enterobacteria phage T7]
sp|P03746|VTTA_BPT7 TAIL TUBULAR PROTEIN A
pir||TLBPA7 tail tubular protein A - phage T7
emb|CAA24429.1| (V01146) gene 11, tail protein [Enterobacteria phage T7]
Length = 196
Score = 53.9 bits (128), Expect = 3e-007
Identities = 28/88 (31%), Positives = 50/88 (56%), Gaps = 1/88 (1%)
Query: 16 VIRNGKLYDKRNHTYKFDVDELKLDIVWLFDFEDIPNAIRNYITIRASNLFAMRTTGSTE 75
V R G +YD+ + + +FD + ++I+ L D++++P R +I +AS F R G+ E
Sbjct: 97 VNRGGYVYDRTSQSDRFD-SGITVNIIRLRDYDEMPECFRYWIVTKASRQFNNRFFGAPE 155
Query: 76 IAKYGQMEEQQARATALDYETQQGDWNV 103
+ Q EE +AR ++YE G +N+
Sbjct: 156 VEGVLQEEEDEARRLCMEYEMDYGGYNM 183
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.322 0.137 0.000
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 74,688,881
Number of Sequences: 922426
Number of extensions: 2723553
Number of successful extensions: 5884
Number of sequences better than 5.0e-02: 4
Number of HSP's better than 0.1 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 5879
Number of HSP's gapped (non-prelim): 5
length of query: 125
length of database: 289,484,438
effective HSP length: 101
effective length of query: 24
effective length of database: 196,319,412
effective search space: 4711665888
effective search space used: 4711665888
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 83 (36.6 bits)
Query= orf41 [8381-8449]
(67 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570346.1| (NC_003390) tail protein B [Cyanophage P60... 136 4e-032
ref|NP_052110.1| (NC_001271) tail tubular protein A [Bacter... 43 8e-004
ref|NP_523336.1| (NC_003298) tail tubular protein A [Bacter... 43 8e-004
ref|NP_041999.1| (NC_001604) gene 11, tail protein [Enterob... 41 0.003
>ref|NP_570346.1| (NC_003390) tail protein B [Cyanophage P60]
gb|AAL73284.1| (AF338467) tail protein B [Cyanophage P60]
Length = 67
Score = 136 bits (343), Expect = 4e-032
Identities = 67/67 (100%), Positives = 67/67 (100%)
Query: 1 MAPIKRTSELDALNVKMTNIGQQPIVNINNTNPQVALAKTVLNQVTSDVLTEGWIFNREL 60
MAPIKRTSELDALNVKMTNIGQQPIVNINNTNPQVALAKTVLNQVTSDVLTEGWIFNREL
Sbjct: 1 MAPIKRTSELDALNVKMTNIGQQPIVNINNTNPQVALAKTVLNQVTSDVLTEGWIFNREL 60
Query: 61 DYPLTPQ 67
DYPLTPQ
Sbjct: 61 DYPLTPQ 67
>ref|NP_052110.1| (NC_001271) tail tubular protein A [Bacteriophage phiYeO3-12]
emb|CAB63631.1| (AJ251805) tail tubular protein A [Bacteriophage phiYeO3-12]
Length = 196
Score = 42.7 bits (99), Expect = 8e-004
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 4 IKRTSELDALNVKMTNIGQQPIVNIN-NTNPQVALAKTVLNQVTSDVLTEGWIFNRELDY 62
I+ EL A+N + +IG+ P+ + + N VA A+ VLN++ + + GW FN E
Sbjct: 8 IETAEELSAVNDILASIGEPPVSTLEGDANADVANARRVLNKINRQIQSRGWTFNIEEGV 67
Query: 63 PLTP 66
L P
Sbjct: 68 TLLP 71
>ref|NP_523336.1| (NC_003298) tail tubular protein A [Bacteriophage T3]
emb|CAC86299.1| (AJ318471) tail tubular protein A [Bacteriophage T3]
Length = 196
Score = 42.7 bits (99), Expect = 8e-004
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 4 IKRTSELDALNVKMTNIGQQPIVNIN-NTNPQVALAKTVLNQVTSDVLTEGWIFNRELDY 62
I+ EL A+N + +IG+ P+ + + N VA A+ VLN++ + + GW FN E
Sbjct: 8 IETAEELSAVNDILASIGEPPVSTLEGDANADVANARRVLNKINRQIQSRGWTFNIEEGV 67
Query: 63 PLTP 66
L P
Sbjct: 68 TLLP 71
>ref|NP_041999.1| (NC_001604) gene 11, tail protein [Enterobacteria phage T7]
sp|P03746|VTTA_BPT7 TAIL TUBULAR PROTEIN A
pir||TLBPA7 tail tubular protein A - phage T7
emb|CAA24429.1| (V01146) gene 11, tail protein [Enterobacteria phage T7]
Length = 196
Score = 40.8 bits (94), Expect = 0.003
Identities = 19/64 (29%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 4 IKRTSELDALNVKMTNIGQQPIVNIN-NTNPQVALAKTVLNQVTSDVLTEGWIFNRELDY 62
++ +EL A+N + +IG+ P+ + + N A A+ +LN++ + + GW FN E
Sbjct: 8 VETAAELSAVNDILASIGEPPVSTLEGDANADAANARRILNKINRQIQSRGWTFNIEEGI 67
Query: 63 PLTP 66
L P
Sbjct: 68 TLLP 71
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.314 0.130 0.000
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,311,607
Number of Sequences: 922426
Number of extensions: 1040872
Number of successful extensions: 2060
Number of sequences better than 5.0e-02: 4
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2056
Number of HSP's gapped (non-prelim): 4
length of query: 67
length of database: 289,484,438
effective HSP length: 43
effective length of query: 24
effective length of database: 249,820,120
effective search space: 5995682880
effective search space used: 5995682880
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf42 [8488-8710]
(221 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570347.1| (NC_003390) minor capsid protein [Cyanopha... 408 e-113
ref|NP_041997.1| (NC_001604) gene 10B, minor capsid protein... 47 2e-004
ref|NP_041998.1| (NC_001604) gene 10A, major capsid protein... 47 2e-004
>ref|NP_570347.1| (NC_003390) minor capsid protein [Cyanophage P60]
gb|AAL73285.1| (AF338467) minor capsid protein [Cyanophage P60]
Length = 221
Score = 408 bits (1049), Expect = e-113
Identities = 207/221 (93%), Positives = 207/221 (93%)
Query: 1 MDDLLVASQFVYDLDEILAQWNTRSEISKQIGEALAIHYDEXXXXXXXXXXXXXXPVTGQ 60
MDDLLVASQFVYDLDEILAQWNTRSEISKQIGEALAIHYDE PVTGQ
Sbjct: 1 MDDLLVASQFVYDLDEILAQWNTRSEISKQIGEALAIHYDERIARVLASASIAAAPVTGQ 60
Query: 61 DGGFSVNIGAGNTNNAQAIVDGFFEAAAVLDERSAPMDGRVAVLSPRQYYSLISSVDTNI 120
DGGFSVNIGAGNTNNAQAIVDGFFEAAAVLDERSAPMDGRVAVLSPRQYYSLISSVDTNI
Sbjct: 61 DGGFSVNIGAGNTNNAQAIVDGFFEAAAVLDERSAPMDGRVAVLSPRQYYSLISSVDTNI 120
Query: 121 LNREIGNTQGDMNTGKGLYVNAGIRIYKSNVLASLYGTNLVTDPGDATTSGENNGSYRPA 180
LNREIGNTQGDMNTGKGLYVNAGIRIYKSNVLASLYGTNLVTDPGDATTSGENNGSYRPA
Sbjct: 121 LNREIGNTQGDMNTGKGLYVNAGIRIYKSNVLASLYGTNLVTDPGDATTSGENNGSYRPA 180
Query: 181 ITDRAGLVFHKEAADTVEVLLPPSRPPLVISMFSIRRPDRR 221
ITDRAGLVFHKEAADTVEVLLPPSRPPLVISMFSIRRPDRR
Sbjct: 181 ITDRAGLVFHKEAADTVEVLLPPSRPPLVISMFSIRRPDRR 221
>ref|NP_041997.1| (NC_001604) gene 10B, minor capsid protein [12] [Enterobacteria
phage T7]
sp|P19727|VCAB_BPT7 MINOR CAPSID PROTEIN 10B
pir||VBBPA7 minor capsid protein 10B - phage T7
emb|CAA24428.1| (V01146) gene 10B, minor capsid protein [12] [Enterobacteria phage
T7]
Length = 398
Score = 46.6 bits (109), Expect = 2e-004
Identities = 45/211 (21%), Positives = 78/211 (36%), Gaps = 15/211 (7%)
Query: 1 MDDLLVASQFVYDLDEILAQWNTRSEISKQIGEALAIHYDEXXXXXXXXXXXXXXPVTGQ 60
+D LL A +YD+++ + ++ RSE + Q+GE+LA+ D
Sbjct: 96 IDGLLTADVLIYDIEDAMNHYDVRSEYTSQLGESLAMAADGAVLAEIAGLCNVESKYNEN 155
Query: 61 DGGFSVNIGAGNTNNAQAIVD----------GFFEAAAVLDERSAPMDGRVAVLSPRQYY 110
G T N A+ D +A A L + P RV P Y
Sbjct: 156 IEGLGTATVIETTQNKAALTDQVALGKEIIAALTKARAALTKNYVPAADRVFYCDPDSYS 215
Query: 111 SLISSVDTNILNRE--IGNTQGDMNTGKGLYVNAGIRIYKSNVLASLYGTNLVTDPGDAT 168
++++++ N N I +G + G V + + GT T
Sbjct: 216 AILAALMPNAANYAALIDPEKGSIRNVMGFEVVEVPHLTAGGAGTAREGT---TGQKHVF 272
Query: 169 TSGENNGSYRPAITDRAGLVFHKEAADTVEV 199
+ + G+ + A + GL H+ A TV++
Sbjct: 273 PANKGEGNVKVAKDNVIGLFMHRSAVGTVKL 303
>ref|NP_041998.1| (NC_001604) gene 10A, major capsid protein [Enterobacteria phage
T7]
sp|P19726|VCAA_BPT7 MAJOR CAPSID PROTEIN 10A
pir||VABPA7 major capsid protein 10A - phage T7
emb|CAA24427.1| (V01146) gene 10A, major capsid protein [Enterobacteria phage T7]
Length = 345
Score = 46.6 bits (109), Expect = 2e-004
Identities = 45/211 (21%), Positives = 78/211 (36%), Gaps = 15/211 (7%)
Query: 1 MDDLLVASQFVYDLDEILAQWNTRSEISKQIGEALAIHYDEXXXXXXXXXXXXXXPVTGQ 60
+D LL A +YD+++ + ++ RSE + Q+GE+LA+ D
Sbjct: 96 IDGLLTADVLIYDIEDAMNHYDVRSEYTSQLGESLAMAADGAVLAEIAGLCNVESKYNEN 155
Query: 61 DGGFSVNIGAGNTNNAQAIVD----------GFFEAAAVLDERSAPMDGRVAVLSPRQYY 110
G T N A+ D +A A L + P RV P Y
Sbjct: 156 IEGLGTATVIETTQNKAALTDQVALGKEIIAALTKARAALTKNYVPAADRVFYCDPDSYS 215
Query: 111 SLISSVDTNILNRE--IGNTQGDMNTGKGLYVNAGIRIYKSNVLASLYGTNLVTDPGDAT 168
++++++ N N I +G + G V + + GT T
Sbjct: 216 AILAALMPNAANYAALIDPEKGSIRNVMGFEVVEVPHLTAGGAGTAREGT---TGQKHVF 272
Query: 169 TSGENNGSYRPAITDRAGLVFHKEAADTVEV 199
+ + G+ + A + GL H+ A TV++
Sbjct: 273 PANKGEGNVKVAKDNVIGLFMHRSAVGTVKL 303
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.135 0.000
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 121,860,539
Number of Sequences: 922426
Number of extensions: 4912268
Number of successful extensions: 8401
Number of sequences better than 5.0e-02: 3
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 8398
Number of HSP's gapped (non-prelim): 3
length of query: 221
length of database: 289,484,438
effective HSP length: 116
effective length of query: 105
effective length of database: 182,483,022
effective search space: 19160717310
effective search space used: 19160717310
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 88 (38.5 bits)
Query= orf43 [8709-8765]
(55 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.314 0.129 0.000
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,724,572
Number of Sequences: 922426
Number of extensions: 409534
Number of successful extensions: 259
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 259
Number of HSP's gapped (non-prelim): 0
length of query: 55
length of database: 289,484,438
effective HSP length: 31
effective length of query: 24
effective length of database: 260,889,232
effective search space: 6261341568
effective search space used: 6261341568
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 84 (37.0 bits)
Query= orf44 [8906-9020]
(113 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570348.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 188 1e-047
>ref|NP_570348.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73286.1| (AF338467) unknown [Cyanophage P60]
Length = 113
Score = 188 bits (477), Expect = 1e-047
Identities = 97/113 (85%), Positives = 97/113 (85%)
Query: 1 MDSKELVKEYLKFYQENXXXXXXXXXXXXXXXXILQSVGGAEAYQELVGWAANNLAAEEI 60
MDSKELVKEYLKFYQEN ILQSVGGAEAYQELVGWAANNLAAEEI
Sbjct: 1 MDSKELVKEYLKFYQENAAQQQQQQVKAADEAAILQSVGGAEAYQELVGWAANNLAAEEI 60
Query: 61 SDFNGVVNSGNTVANKFAVEALRNRRVAAEGNEAPLVTGRKSQGPTKDRSVQR 113
SDFNGVVNSGNTVANKFAVEALRNRRVAAEGNEAPLVTGRKSQGPTKDRSVQR
Sbjct: 61 SDFNGVVNSGNTVANKFAVEALRNRRVAAEGNEAPLVTGRKSQGPTKDRSVQR 113
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.309 0.127 0.000
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 49,388,649
Number of Sequences: 922426
Number of extensions: 1446587
Number of successful extensions: 3268
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3267
Number of HSP's gapped (non-prelim): 1
length of query: 113
length of database: 289,484,438
effective HSP length: 89
effective length of query: 24
effective length of database: 207,388,524
effective search space: 4977324576
effective search space used: 4977324576
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 83 (36.6 bits)
Query= orf45 [9012-9153]
(140 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570349.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 166 3e-041
>ref|NP_570349.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73287.1| (AF338467) unknown [Cyanophage P60]
Length = 140
Score = 166 bits (421), Expect = 3e-041
Identities = 90/140 (64%), Positives = 90/140 (64%)
Query: 1 MATTEFNPFDEGPDSXXXXXXXXXXXXXXXXXXXXXXDKLRRFEQAEAEAEPLAGKFKTP 60
MATTEFNPFDEGPDS DKLRRFEQAEAEAEPLAGKFKTP
Sbjct: 1 MATTEFNPFDEGPDSAQAEAEKAALEAGEKIAAAEAEDKLRRFEQAEAEAEPLAGKFKTP 60
Query: 61 EELEKAYLELQKKLGQXXXXXXXXXXXXXXXXXXXXXXXXXXXXSDVGKASVTTPRSTRR 120
EELEKAYLELQKKLGQ SDVGKASVTTPRSTRR
Sbjct: 61 EELEKAYLELQKKLGQETPEPEEEPAEEQPEASEEAPVEEEVEVSDVGKASVTTPRSTRR 120
Query: 121 LGPSLMRPLRPVQHGLQGAR 140
LGPSLMRPLRPVQHGLQGAR
Sbjct: 121 LGPSLMRPLRPVQHGLQGAR 140
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.311 0.131 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 50,438,429
Number of Sequences: 922426
Number of extensions: 993040
Number of successful extensions: 2397
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2395
Number of HSP's gapped (non-prelim): 1
length of query: 140
length of database: 289,484,438
effective HSP length: 116
effective length of query: 24
effective length of database: 182,483,022
effective search space: 4379592528
effective search space used: 4379592528
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 83 (36.6 bits)
Query= orf46 [9216-9772]
(555 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570351.1| (NC_003390) head-tail connector protein [C... 973 0.0
ref|NP_041995.1| (NC_001604) gene 8, head-tail connector pr... 276 5e-073
ref|NP_523332.1| (NC_003298) head-to-tail joining protein [... 272 8e-072
ref|NP_052106.1| (NC_001271) head-to-tail joining protein [... 271 1e-071
>ref|NP_570351.1| (NC_003390) head-tail connector protein [Cyanophage P60]
gb|AAL73289.1| (AF338467) head-tail connector protein [Cyanophage P60]
Length = 555
Score = 973 bits (2515), Expect = 0.0
Identities = 500/521 (95%), Positives = 500/521 (95%)
Query: 1 MKHSAQAKYMMLRADREDYLDSGRQSARLTLPYILTDEGHVQGGYLPTPWQSVGSKGVNV 60
MKHSAQAKYMMLRADREDYLDSGRQSARLTLPYILTDEGHVQGGYLPTPWQSVGSKGVNV
Sbjct: 1 MKHSAQAKYMMLRADREDYLDSGRQSARLTLPYILTDEGHVQGGYLPTPWQSVGSKGVNV 60
Query: 61 LASKLMLSLFPVNTSFFKLQINDAEIDNLGMDEQARSEIDLSLSRIERIVTQDIAESSDR 120
LASKLMLSLFPVNTSFFKLQINDAEIDNLGMDEQARSEIDLSLSRIERIVTQDIAESSDR
Sbjct: 61 LASKLMLSLFPVNTSFFKLQINDAEIDNLGMDEQARSEIDLSLSRIERIVTQDIAESSDR 120
Query: 121 VHLEMAMKHLIVTGNALLYQGKKNLKLYPLDRFVVSRDGEGNVMEIVTEEQIDRSLLPEE 180
VHLEMAMKHLIVTGNALLYQGKKNLKLYPLDRFVVSRDGEGNVMEIVTEEQIDRSLLPEE
Sbjct: 121 VHLEMAMKHLIVTGNALLYQGKKNLKLYPLDRFVVSRDGEGNVMEIVTEEQIDRSLLPEE 180
Query: 181 FQKVGGLEGAPDSNAVGEDGPKMGVTAPGGRDKGKSNDALVYTYVCRKDGQVKWHQECDG 240
FQKVGGLEGAPDSNAVGEDGPKMGVTAPGGRDKGKSNDALVYTYVCRKDGQVKWHQECDG
Sbjct: 181 FQKVGGLEGAPDSNAVGEDGPKMGVTAPGGRDKGKSNDALVYTYVCRKDGQVKWHQECDG 240
Query: 241 KVIPGSNSSAPYTHNPWIPLRFNIVDGEAYGRGRVEEFMGDLKSLEALSQAMVEGSAASA 300
KVIPGSNSSAPYTHNPWIPLRFNIVDGEAYGRGRVEEFMGDLKSLEALSQAMVEGSAASA
Sbjct: 241 KVIPGSNSSAPYTHNPWIPLRFNIVDGEAYGRGRVEEFMGDLKSLEALSQAMVEGSAASA 300
Query: 301 KVVFMVSPSATTKPQNLALAANGAIIQGRPDDVSVVQANKAADFRTVLEMIQKLEQRISD 360
KVVFMVSPSATTKPQNLALAANGAIIQGRPDDVSVVQANKAADFRTVLEMIQKLEQRISD
Sbjct: 301 KVVFMVSPSATTKPQNLALAANGAIIQGRPDDVSVVQANKAADFRTVLEMIQKLEQRISD 360
Query: 361 AFLMLQVRQSERTTATEVQATVQELNEQIGGIYSNLTTELLQPYXXXXXXXXXXXXXXXX 420
AFLMLQVRQSERTTATEVQATVQELNEQIGGIYSNLTTELLQPY
Sbjct: 361 AFLMLQVRQSERTTATEVQATVQELNEQIGGIYSNLTTELLQPYLARKLHLLQKQRKLPQ 420
Query: 421 XXXXXVQPTVVAGLWGVGRGQDKQQLMEFITTLAQTMGPEIAMKYINPTEFIKRLAAAQG 480
VQPTVVAGLWGVGRGQDKQQLMEFITTLAQTMGPEIAMKYINPTEFIKRLAAAQG
Sbjct: 421 LPKDLVQPTVVAGLWGVGRGQDKQQLMEFITTLAQTMGPEIAMKYINPTEFIKRLAAAQG 480
Query: 481 IDTLQLINSPETMKQLGDQQKQDMVQASLINQAGQLAKTPM 521
IDTLQLINSPETMKQLGDQQKQDMVQASLINQAGQLAKTPM
Sbjct: 481 IDTLQLINSPETMKQLGDQQKQDMVQASLINQAGQLAKTPM 521
>ref|NP_041995.1| (NC_001604) gene 8, head-tail connector protein [Enterobacteria
phage T7]
sp|P03728|VHTJ_BPT7 HEAD-TO-TAIL JOINING PROTEIN
pir||JQBPT7 head-to-tail joining protein - phage T7
emb|CAA24425.1| (V01146) gene 8, head-tail connector protein [Enterobacteria phage
T7]
Length = 536
Score = 276 bits (705), Expect = 5e-073
Identities = 178/523 (34%), Positives = 270/523 (51%), Gaps = 34/523 (6%)
Query: 5 AQAKYMMLRADREDYLDSGRQSARLTLPYILTDEGHVQGGYLPTPWQSVGSKGVNVLASK 64
A++ Y L+ DR Y + A+ T+P + + TPWQ+VG++G+N LASK
Sbjct: 13 AKSVYERLKNDRAPYETRAQNCAQYTIPSLFPKDSDNASTDYQTPWQAVGARGLNNLASK 72
Query: 65 LMLSLFPVNTSFFKLQINDAEIDNLGMDEQARSEIDLSLSRIERIVTQDIAESSDRVHLE 124
LML+LFP+ T + +L I++ E L D +++D LS +ERI+ I +S RV L
Sbjct: 73 LMLALFPMQT-WMRLTISEYEAKQLLSDPDGLAKVDEGLSMVERIIMNYIESNSYRVTLF 131
Query: 125 MAMKHLIVTGNALLYQGKKN------LKLYPLDRFVVSRDGEGNVMEIVTEEQIDRSLLP 178
A+K L+V GN LLY + +KLY L +VV RD GNV+++VT +QI LP
Sbjct: 132 EALKQLVVAGNVLLYLPEPEGSNYNPMKLYRLSSYVVQRDAFGNVLQMVTRDQIAFGALP 191
Query: 179 EEFQKVGGLEGAPDSNAVGEDGPKMGVTAPGGRDKGKSN-DALVYTYVCRKDGQVKWHQE 237
E+ +K V GG K D + Y+ G+ ++E
Sbjct: 192 EDIRKA--------------------VEGQGGEKKADETIDVYTHIYLDEDSGEYLRYEE 231
Query: 238 CDGKVIPGSNSSAPYTHNPWIPLRFNIVDGEAYGRGRVEEFMGDLKSLEALSQAMVEGSA 297
+G + GS+ + P P+IP+R +DGE+YGR +EE++GDL+SLE L +A+V+ S
Sbjct: 232 VEGMEVQGSDGTYPKEACPYIPIRMVRLDGESYGRSYIEEYLGDLRSLENLQEAIVKMSM 291
Query: 298 ASAKVVFMVSPSATTKPQNLALAANGAIIQGRPDDVSVVQANKAADFRTVLEMIQKLEQR 357
S+KV+ +V+P+ T+P+ L A G + GRP+D+S +Q K ADF + +E R
Sbjct: 292 ISSKVIGLVNPAGITQPRRLTKAQTGDFVTGRPEDISFLQLEKQADFTVAKAVSDAIEAR 351
Query: 358 ISDAFLMLQV--RQSERTTATEVQATVQELNEQIGGIYSNLTTELLQPYXXXXXXXXXXX 415
+S AF++ R ER TA E++ EL + +GG+YS L+ EL P
Sbjct: 352 LSFAFMLNSAVQRTGERVTAEEIRYVASELEDTLGGVYSILSQELQLPLVRVLLKQLQAT 411
Query: 416 XXXXXXXXXXVQPTVVAGLWGVGRGQDKQQLMEFITTLAQTMGPEIAMKYINPTEFIKRL 475
V+PT+ GL +GRGQD +L +T A + P IN R+
Sbjct: 412 QQIPELPKEAVEPTISTGLEAIGRGQDLDKLERCVTAWA-ALAPMRDDPDINLAMIKLRI 470
Query: 476 AAAQGIDTLQLINSPETMKQLGDQQKQDMVQASLINQAGQLAK 518
A A GIDT ++ + E +Q + Q +Q + N A LA+
Sbjct: 471 ANAIGIDTSGILLTEEQKQQ---KMAQQSMQMGMDNGAAALAQ 510
>ref|NP_523332.1| (NC_003298) head-to-tail joining protein [Bacteriophage T3]
sp|P20323|VHTJ_BPT3 HEAD-TO-TAIL JOINING PROTEIN
pir||S07521 head-to-tail joining protein - phage T3
emb|CAA35152.1| (X17255) 8 [Bacteriophage T3]
emb|CAC86295.1| (AJ318471) head-to-tail joining protein [Bacteriophage T3]
Length = 535
Score = 272 bits (695), Expect = 8e-072
Identities = 182/516 (35%), Positives = 268/516 (51%), Gaps = 31/516 (6%)
Query: 5 AQAKYMMLRADREDYLDSGRQSARLTLPYILTDEGHVQGGYLPTPWQSVGSKGVNVLASK 64
A+A Y L DR Y A+ T+P + E + TPWQ+VG++G+N LASK
Sbjct: 14 AKATYDRLTNDRRAYETRAENCAQYTIPSLFPKESDNESTDYTTPWQAVGARGLNNLASK 73
Query: 65 LMLSLFPVNTSFFKLQINDAEIDNLGMDEQARSEIDLSLSRIERIVTQDIAESSDRVHLE 124
LML+LFP+ S+ KL I++ E L D +++D LS +ERI+ I +S RV L
Sbjct: 74 LMLALFPMQ-SWMKLTISEYEAKQLVGDPDGLAKVDEGLSMVERIIMNYIESNSYRVTLF 132
Query: 125 MAMKHLIVTGNALLY----QGKKN-LKLYPLDRFVVSRDGEGNVMEIVTEEQIDRSLLPE 179
+K LIV GNALLY +G N +KLY L +VV RD GNV++IVT +QI LPE
Sbjct: 133 ECLKQLIVAGNALLYLPEPEGSYNPMKLYRLSSYVVQRDAYGNVLQIVTRDQIAFGALPE 192
Query: 180 EFQKVGGLEGAPDSNAVGEDGPKMGVTAPGGRDKGKSNDALVYTYVCRKDGQVKWHQECD 239
+ + +AV + G G + + D + Y+ + G ++E +
Sbjct: 193 DVR-----------SAVEKSG--------GEKKMDEMVDVYTHVYLDEESGDYLKYEEVE 233
Query: 240 GKVIPGSNSSAPYTHNPWIPLRFNIVDGEAYGRGRVEEFMGDLKSLEALSQAMVEGSAAS 299
I GS+++ P P+IP+R +DGE+YGR EE++GDL+SLE L +A+V+ S S
Sbjct: 234 DVEIDGSDATYPTDAMPYIPVRMVRIDGESYGRSYCEEYLGDLRSLENLQEAIVKMSMIS 293
Query: 300 AKVVFMVSPSATTKPQNLALAANGAIIQGRPDDVSVVQANKAADFRTVLEMIQKLEQRIS 359
AKV+ +V+P+ T+P+ L A G + GR +D+ +Q K ADF + ++E R+S
Sbjct: 294 AKVIGLVNPAGITQPRRLTKAQTGDFVPGRREDIDFLQLEKQADFTVAKAVSDQIEARLS 353
Query: 360 DAFLMLQV--RQSERTTATEVQATVQELNEQIGGIYSNLTTELLQPYXXXXXXXXXXXXX 417
AF++ R ER TA E++ EL + +GG+YS L+ EL P
Sbjct: 354 YAFMLNSAVQRTGERVTAEEIRYVASELEDTLGGVYSILSQELQLPLVRVLLKQLQATSQ 413
Query: 418 XXXXXXXXVQPTVVAGLWGVGRGQDKQQLMEFITTLAQTMGPEIAMKYINPTEFIKRLAA 477
V+PT+ GL +GRGQD +L I+ A + P IN R+A
Sbjct: 414 IPELPKEAVEPTISTGLEAIGRGQDLDKLERCISAWA-ALAPMQGDPDINLAVIKLRIAN 472
Query: 478 AQGIDTLQLINSPETMKQLGDQQKQDMVQASLINQA 513
A GIDT ++ + E + L QD Q + N A
Sbjct: 473 AIGIDTSGILLTDEQKQAL---MMQDAAQTGVENAA 505
>ref|NP_052106.1| (NC_001271) head-to-tail joining protein [Bacteriophage phiYeO3-12]
emb|CAB63627.1| (AJ251805) head-to-tail joining protein [Bacteriophage phiYeO3-12]
Length = 535
Score = 271 bits (694), Expect = 1e-071
Identities = 182/516 (35%), Positives = 268/516 (51%), Gaps = 31/516 (6%)
Query: 5 AQAKYMMLRADREDYLDSGRQSARLTLPYILTDEGHVQGGYLPTPWQSVGSKGVNVLASK 64
A+A Y L DR Y A+ T+P + E + TPWQ+VG++G+N LASK
Sbjct: 14 AKATYDRLTNDRRAYETRAENCAQYTIPSLFPKESDNESTDYTTPWQAVGARGLNNLASK 73
Query: 65 LMLSLFPVNTSFFKLQINDAEIDNLGMDEQARSEIDLSLSRIERIVTQDIAESSDRVHLE 124
LML+LFP+ S+ KL I++ E L D +++D LS +ERI+ I +S RV L
Sbjct: 74 LMLALFPMQ-SWMKLTISEYEAKQLVGDPDGLAKVDEGLSMVERIIMNYIESNSYRVTLF 132
Query: 125 MAMKHLIVTGNALLY----QGKKN-LKLYPLDRFVVSRDGEGNVMEIVTEEQIDRSLLPE 179
+K LIV GNALLY +G N +KLY L +VV RD GNV++IVT +QI LPE
Sbjct: 133 ECLKQLIVAGNALLYLPEPEGSYNPMKLYRLSSYVVQRDAYGNVLQIVTRDQIAFGALPE 192
Query: 180 EFQKVGGLEGAPDSNAVGEDGPKMGVTAPGGRDKGKSNDALVYTYVCRKDGQVKWHQECD 239
+ + +AV + G G + + D + Y+ + G ++E +
Sbjct: 193 DVR-----------SAVEKAG--------GEKKMDEMVDVYTHVYLDEESGDYLKYEEVE 233
Query: 240 GKVIPGSNSSAPYTHNPWIPLRFNIVDGEAYGRGRVEEFMGDLKSLEALSQAMVEGSAAS 299
I GS+++ P P+IP+R +DGE+YGR EE++GDL+SLE L +A+V+ S S
Sbjct: 234 DVEIDGSDATYPTDAMPYIPVRMVRIDGESYGRSYCEEYLGDLRSLENLQEAIVKMSMIS 293
Query: 300 AKVVFMVSPSATTKPQNLALAANGAIIQGRPDDVSVVQANKAADFRTVLEMIQKLEQRIS 359
AKV+ +V+P+ T+P+ L A G + GR +D+ +Q K ADF + ++E R+S
Sbjct: 294 AKVIGLVNPAGITQPRRLTKAQTGDFVPGRREDIDFLQLEKQADFTVAKAVSDQIEARLS 353
Query: 360 DAFLMLQV--RQSERTTATEVQATVQELNEQIGGIYSNLTTELLQPYXXXXXXXXXXXXX 417
AF++ R ER TA E++ EL + +GG+YS L+ EL P
Sbjct: 354 YAFMLNSAVQRTGERVTAEEIRYVASELEDTLGGVYSILSQELQLPLVRVLLKQLQATSQ 413
Query: 418 XXXXXXXXVQPTVVAGLWGVGRGQDKQQLMEFITTLAQTMGPEIAMKYINPTEFIKRLAA 477
V+PT+ GL +GRGQD +L I+ A + P IN R+A
Sbjct: 414 IPELPKEAVEPTISTGLEAIGRGQDLDKLERCISAWA-ALAPMQGDPDINLAVIKLRIAN 472
Query: 478 AQGIDTLQLINSPETMKQLGDQQKQDMVQASLINQA 513
A GIDT ++ + E + L QD Q + N A
Sbjct: 473 AIGIDTSGILLTDEQKQAL---MMQDAAQTGIENAA 505
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.132 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 260,846,385
Number of Sequences: 922426
Number of extensions: 10426872
Number of successful extensions: 19677
Number of sequences better than 5.0e-02: 4
Number of HSP's better than 0.1 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 19656
Number of HSP's gapped (non-prelim): 4
length of query: 555
length of database: 289,484,438
effective HSP length: 125
effective length of query: 430
effective length of database: 174,181,188
effective search space: 74897910840
effective search space used: 74897910840
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 94 (40.8 bits)
Query= orf47 [9772-9837]
(64 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570352.1| (NC_003390) putative secreted proline-rich... 99 7e-021
>ref|NP_570352.1| (NC_003390) putative secreted proline-rich protein [Cyanophage
P60]
gb|AAL73290.1| (AF338467) putative secreted proline-rich protein [Cyanophage
P60]
Length = 94
Score = 99.4 bits (246), Expect = 7e-021
Identities = 51/64 (79%), Positives = 51/64 (79%)
Query: 1 VAPPPELVNADAEAPKVTAQKTERGQAQQSARGTSSLTIPKQTVNTXXXXXXXXXXXXXL 60
VAPPPELVNADAEAPKVTAQKTERGQAQQSARGTSSLTIPKQTVNT L
Sbjct: 31 VAPPPELVNADAEAPKVTAQKTERGQAQQSARGTSSLTIPKQTVNTGGASAGGGKKSGSL 90
Query: 61 NIPT 64
NIPT
Sbjct: 91 NIPT 94
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.302 0.119 0.000
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,108,934
Number of Sequences: 922426
Number of extensions: 557693
Number of successful extensions: 1136
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1135
Number of HSP's gapped (non-prelim): 1
length of query: 64
length of database: 289,484,438
effective HSP length: 40
effective length of query: 24
effective length of database: 252,587,398
effective search space: 6062097552
effective search space used: 6062097552
T: 11
A: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 84 (37.0 bits)
Query= orf48 [9867-9926]
(58 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570338.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 117 2e-026
>ref|NP_570338.1| (NC_003390) unknown [Cyanophage P60]
ref|NP_570353.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73276.1| (AF338467) unknown [Cyanophage P60]
gb|AAL73291.1| (AF338467) unknown [Cyanophage P60]
Length = 58
Score = 117 bits (294), Expect = 2e-026
Identities = 58/58 (100%), Positives = 58/58 (100%)
Query: 1 MNDPIQQFTGDTQVAKLLSELENLFPPVTPTPTDEIASIMYRSGQRSVVEYIKQLLEN 58
MNDPIQQFTGDTQVAKLLSELENLFPPVTPTPTDEIASIMYRSGQRSVVEYIKQLLEN
Sbjct: 1 MNDPIQQFTGDTQVAKLLSELENLFPPVTPTPTDEIASIMYRSGQRSVVEYIKQLLEN 58
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.313 0.132 0.000
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 32,948,586
Number of Sequences: 922426
Number of extensions: 940996
Number of successful extensions: 2147
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2146
Number of HSP's gapped (non-prelim): 1
length of query: 58
length of database: 289,484,438
effective HSP length: 34
effective length of query: 24
effective length of database: 258,121,954
effective search space: 6194926896
effective search space used: 6194926896
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf49 [9925-9960]
(34 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570337.1| (NC_003390) ribonucleoside triphosphate re... 79 1e-014
>ref|NP_570337.1| (NC_003390) ribonucleoside triphosphate reductase B [Cyanophage
P60]
gb|AAL73275.1| (AF338467) ribonucleoside triphosphate reductase B [Cyanophage P60]
Length = 446
Score = 79.0 bits (193), Expect = 1e-014
Identities = 34/34 (100%), Positives = 34/34 (100%)
Query: 1 MDFHDAMAKHFDAQHVEHGPAACDSDKCLFEEKK 34
MDFHDAMAKHFDAQHVEHGPAACDSDKCLFEEKK
Sbjct: 413 MDFHDAMAKHFDAQHVEHGPAACDSDKCLFEEKK 446
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.322 0.134 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,520,367
Number of Sequences: 922426
Number of extensions: 389748
Number of successful extensions: 640
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 639
Number of HSP's gapped (non-prelim): 1
length of query: 34
length of database: 289,484,438
effective HSP length: 10
effective length of query: 24
effective length of database: 280,260,178
effective search space: 6726244272
effective search space used: 6726244272
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 85 (37.4 bits)
Query= orf50 [10005-10105]
(99 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570354.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 203 3e-052
>ref|NP_570354.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73292.1| (AF338467) unknown [Cyanophage P60]
Length = 99
Score = 203 bits (516), Expect = 3e-052
Identities = 99/99 (100%), Positives = 99/99 (100%)
Query: 1 MAFRSFPVQHILPVTLPSSQTKKMRFTEDALVEAVAALGWDVRNVDIHVEIGGTSVYEID 60
MAFRSFPVQHILPVTLPSSQTKKMRFTEDALVEAVAALGWDVRNVDIHVEIGGTSVYEID
Sbjct: 1 MAFRSFPVQHILPVTLPSSQTKKMRFTEDALVEAVAALGWDVRNVDIHVEIGGTSVYEID 60
Query: 61 GAGTKWAPLKGTRKYNNDAFIVIKNRTRDPIVPSKPNVE 99
GAGTKWAPLKGTRKYNNDAFIVIKNRTRDPIVPSKPNVE
Sbjct: 61 GAGTKWAPLKGTRKYNNDAFIVIKNRTRDPIVPSKPNVE 99
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.318 0.135 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 58,812,990
Number of Sequences: 922426
Number of extensions: 2145322
Number of successful extensions: 4721
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 4720
Number of HSP's gapped (non-prelim): 1
length of query: 99
length of database: 289,484,438
effective HSP length: 75
effective length of query: 24
effective length of database: 220,302,488
effective search space: 5287259712
effective search space used: 5287259712
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 84 (37.0 bits)
Query= orf51 [10133-10188]
(54 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570355.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 113 5e-025
>ref|NP_570355.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73293.1| (AF338467) unknown [Cyanophage P60]
Length = 54
Score = 113 bits (282), Expect = 5e-025
Identities = 54/54 (100%), Positives = 54/54 (100%)
Query: 1 MKLTNSTWVLGAKPTKKQARELTWTGRHTKNFKQNMGAARKPEVLALQKGRRAA 54
MKLTNSTWVLGAKPTKKQARELTWTGRHTKNFKQNMGAARKPEVLALQKGRRAA
Sbjct: 1 MKLTNSTWVLGAKPTKKQARELTWTGRHTKNFKQNMGAARKPEVLALQKGRRAA 54
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.314 0.125 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,746,044
Number of Sequences: 922426
Number of extensions: 790100
Number of successful extensions: 1712
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1711
Number of HSP's gapped (non-prelim): 1
length of query: 54
length of database: 289,484,438
effective HSP length: 30
effective length of query: 24
effective length of database: 261,811,658
effective search space: 6283479792
effective search space used: 6283479792
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 84 (37.0 bits)
Query= orf52 [10299-10392]
(92 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570356.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 177 1e-044
>ref|NP_570356.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73294.1| (AF338467) unknown [Cyanophage P60]
Length = 92
Score = 177 bits (450), Expect = 1e-044
Identities = 85/92 (92%), Positives = 85/92 (92%)
Query: 1 MHPRHSHNVETPHIGLILFSXXXXXXXMRHHCIMTHTQHLFHATFRANDKQGTVTLPIID 60
MHPRHSHNVETPHIGLILFS MRHHCIMTHTQHLFHATFRANDKQGTVTLPIID
Sbjct: 1 MHPRHSHNVETPHIGLILFSIITTITIMRHHCIMTHTQHLFHATFRANDKQGTVTLPIID 60
Query: 61 TDLKSALSHLAAAGYGRPLRIELVGSHKALRK 92
TDLKSALSHLAAAGYGRPLRIELVGSHKALRK
Sbjct: 61 TDLKSALSHLAAAGYGRPLRIELVGSHKALRK 92
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.326 0.137 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 47,715,954
Number of Sequences: 922426
Number of extensions: 1435456
Number of successful extensions: 3612
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3611
Number of HSP's gapped (non-prelim): 1
length of query: 92
length of database: 289,484,438
effective HSP length: 68
effective length of query: 24
effective length of database: 226,759,470
effective search space: 5442227280
effective search space used: 5442227280
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 84 (37.0 bits)
Query= orf53 [10436-10520]
(83 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570357.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 185 1e-046
>ref|NP_570357.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73295.1| (AF338467) unknown [Cyanophage P60]
Length = 83
Score = 185 bits (469), Expect = 1e-046
Identities = 83/83 (100%), Positives = 83/83 (100%)
Query: 1 MTDTTIYQLPVHWAPALINDDWTGLEEQDEEQLMAFLFNELAGEGVCITLDPEEEPFFMK 60
MTDTTIYQLPVHWAPALINDDWTGLEEQDEEQLMAFLFNELAGEGVCITLDPEEEPFFMK
Sbjct: 1 MTDTTIYQLPVHWAPALINDDWTGLEEQDEEQLMAFLFNELAGEGVCITLDPEEEPFFMK 60
Query: 61 HHDAKPYGCLACDCYNYTVIDMN 83
HHDAKPYGCLACDCYNYTVIDMN
Sbjct: 61 HHDAKPYGCLACDCYNYTVIDMN 83
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.321 0.140 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 55,717,126
Number of Sequences: 922426
Number of extensions: 2129044
Number of successful extensions: 5130
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 5129
Number of HSP's gapped (non-prelim): 1
length of query: 83
length of database: 289,484,438
effective HSP length: 59
effective length of query: 24
effective length of database: 235,061,304
effective search space: 5641471296
effective search space used: 5641471296
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 84 (37.0 bits)
Query= orf54 [10519-10667]
(147 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.320 0.141 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 72,938,898
Number of Sequences: 922426
Number of extensions: 2108507
Number of successful extensions: 2293
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2293
Number of HSP's gapped (non-prelim): 0
length of query: 147
length of database: 289,484,438
effective HSP length: 109
effective length of query: 38
effective length of database: 188,940,004
effective search space: 7179720152
effective search space used: 7179720152
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 85 (37.4 bits)
Query= orf55 [10682-10832]
(149 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570359.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 315 8e-086
>ref|NP_570359.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73297.1| (AF338467) unknown [Cyanophage P60]
Length = 149
Score = 315 bits (807), Expect = 8e-086
Identities = 149/149 (100%), Positives = 149/149 (100%)
Query: 1 MRGTNSHKMTNTQITRCRKAIEDAAEAVGINAVEVDTEDKVGPSFHRIIDFDQWGTVTDG 60
MRGTNSHKMTNTQITRCRKAIEDAAEAVGINAVEVDTEDKVGPSFHRIIDFDQWGTVTDG
Sbjct: 1 MRGTNSHKMTNTQITRCRKAIEDAAEAVGINAVEVDTEDKVGPSFHRIIDFDQWGTVTDG 60
Query: 61 ALGVHDTREQPGDNHFVVYWEKVLPQGYNTKSTIYHEVGHCFGLVHPSFPDGPNSTLPSV 120
ALGVHDTREQPGDNHFVVYWEKVLPQGYNTKSTIYHEVGHCFGLVHPSFPDGPNSTLPSV
Sbjct: 61 ALGVHDTREQPGDNHFVVYWEKVLPQGYNTKSTIYHEVGHCFGLVHPSFPDGPNSTLPSV 120
Query: 121 TIMTFIQDINNSTFTQKDVDDMAAYFNQL 149
TIMTFIQDINNSTFTQKDVDDMAAYFNQL
Sbjct: 121 TIMTFIQDINNSTFTQKDVDDMAAYFNQL 149
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.318 0.135 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 92,383,025
Number of Sequences: 922426
Number of extensions: 3883506
Number of successful extensions: 8320
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 8319
Number of HSP's gapped (non-prelim): 1
length of query: 149
length of database: 289,484,438
effective HSP length: 109
effective length of query: 40
effective length of database: 188,940,004
effective search space: 7557600160
effective search space used: 7557600160
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 85 (37.4 bits)
Query= orf56 [11064-11209]
(144 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570361.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 289 4e-078
>ref|NP_570361.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73299.1| (AF338467) unknown [Cyanophage P60]
Length = 144
Score = 289 bits (739), Expect = 4e-078
Identities = 144/144 (100%), Positives = 144/144 (100%)
Query: 1 MDSNTLKFGQLAALTSFTGQQQATNQFIDAAITNEVQTASLNNLSLGVEAAYEPAKLGQG 60
MDSNTLKFGQLAALTSFTGQQQATNQFIDAAITNEVQTASLNNLSLGVEAAYEPAKLGQG
Sbjct: 1 MDSNTLKFGQLAALTSFTGQQQATNQFIDAAITNEVQTASLNNLSLGVEAAYEPAKLGQG 60
Query: 61 TQQPMEGIRNQYRRYQEEMYTNKHYGVESIDKANLIDYKKKVDRMVEMKYLPESVKYPKI 120
TQQPMEGIRNQYRRYQEEMYTNKHYGVESIDKANLIDYKKKVDRMVEMKYLPESVKYPKI
Sbjct: 61 TQQPMEGIRNQYRRYQEEMYTNKHYGVESIDKANLIDYKKKVDRMVEMKYLPESVKYPKI 120
Query: 121 KEERIKNHNYSLEERENASGFGGL 144
KEERIKNHNYSLEERENASGFGGL
Sbjct: 121 KEERIKNHNYSLEERENASGFGGL 144
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.311 0.129 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 75,547,016
Number of Sequences: 922426
Number of extensions: 2852362
Number of successful extensions: 6626
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6625
Number of HSP's gapped (non-prelim): 1
length of query: 144
length of database: 289,484,438
effective HSP length: 120
effective length of query: 24
effective length of database: 178,793,318
effective search space: 4291039632
effective search space used: 4291039632
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 83 (36.6 bits)
Query= orf57 [11214-11293]
(78 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570362.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 170 3e-042
>ref|NP_570362.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73300.1| (AF338467) unknown [Cyanophage P60]
Length = 78
Score = 170 bits (430), Expect = 3e-042
Identities = 78/78 (100%), Positives = 78/78 (100%)
Query: 1 MNNPKDSTQRYRDVVIGQTTTIWQYLDRRTSVIPDDCNWDDLTDEQKTIIKDTISVEREW 60
MNNPKDSTQRYRDVVIGQTTTIWQYLDRRTSVIPDDCNWDDLTDEQKTIIKDTISVEREW
Sbjct: 1 MNNPKDSTQRYRDVVIGQTTTIWQYLDRRTSVIPDDCNWDDLTDEQKTIIKDTISVEREW 60
Query: 61 ILDPDDWQEATMFKFDED 78
ILDPDDWQEATMFKFDED
Sbjct: 61 ILDPDDWQEATMFKFDED 78
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.316 0.134 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 49,364,086
Number of Sequences: 922426
Number of extensions: 1671250
Number of successful extensions: 3698
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3697
Number of HSP's gapped (non-prelim): 1
length of query: 78
length of database: 289,484,438
effective HSP length: 54
effective length of query: 24
effective length of database: 239,673,434
effective search space: 5752162416
effective search space used: 5752162416
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 84 (37.0 bits)
Query= orf58 [11421-11470]
(48 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.134 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,469,683
Number of Sequences: 922426
Number of extensions: 386829
Number of successful extensions: 756
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 756
Number of HSP's gapped (non-prelim): 0
length of query: 48
length of database: 289,484,438
effective HSP length: 24
effective length of query: 24
effective length of database: 267,346,214
effective search space: 6416309136
effective search space used: 6416309136
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 84 (37.0 bits)
Query= orf59 [11469-11680]
(210 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570363.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 422 e-117
ref|NP_049030.1| (NC_000852) similar to Synechocystis ORF s... 196 1e-049
ref|NP_440394.1| (NC_000911) Thy1 protein homologue [Synech... 194 4e-049
ref|NP_064749.1| (NC_002519) RP thymidylate synthase [Roseo... 87 1e-016
sp|P15808|THY1_DICDI Thy1 protein >gi|279686|pir||YXDOTC th... 84 9e-016
ref|NP_360042.1| (NC_003103) thy1 protein [Rickettsia conor... 80 2e-014
ref|NP_563341.1| (NC_003366) conserved hypothetical protein... 75 4e-013
ref|NP_228259.1| (NC_000853) thy1 protein [Thermotoga marit... 74 7e-013
pdb|1KQ4|A Chain A, Crystal Structure Of Thy1-Complementing... 74 1e-012
ref|NP_280185.1| (NC_002607) Vng1325c [Halobacterium sp. NR... 70 2e-011
ref|NP_601178.1| (NC_003450) COG1351:Predicted alternative ... 70 2e-011
sp|Q9HQ52|YD25_HALN1 Hypothetical protein Vng1325c 70 2e-011
ref|NP_217270.1| (NC_000962) hypothetical protein Rv2754c [... 66 2e-010
ref|NP_281248.1| (NC_002163) hypothetical protein Cj0026c [... 39 0.034
>ref|NP_570363.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73301.1| (AF338467) unknown [Cyanophage P60]
Length = 235
Score = 422 bits (1084), Expect = e-117
Identities = 210/210 (100%), Positives = 210/210 (100%)
Query: 1 MSKVSLISVTPDAEELIAYLARVSNKDAKLGDPADRLIRYLIKHGHWSPFEMAHMVVEIE 60
MSKVSLISVTPDAEELIAYLARVSNKDAKLGDPADRLIRYLIKHGHWSPFEMAHMVVEIE
Sbjct: 26 MSKVSLISVTPDAEELIAYLARVSNKDAKLGDPADRLIRYLIKHGHWSPFEMAHMVVEIE 85
Query: 61 TTRAIAPQILRHRSFSFQEFSQRYAVADLGEFEVPELRRQDTKNRQNSIDDLPAEIVAEF 120
TTRAIAPQILRHRSFSFQEFSQRYAVADLGEFEVPELRRQDTKNRQNSIDDLPAEIVAEF
Sbjct: 86 TTRAIAPQILRHRSFSFQEFSQRYAVADLGEFEVPELRRQDTKNRQNSIDDLPAEIVAEF 145
Query: 121 QSEIDEVFETTRVLYQRMLSYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQLRCGNG 180
QSEIDEVFETTRVLYQRMLSYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQLRCGNG
Sbjct: 146 QSEIDEVFETTRVLYQRMLSYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQLRCGNG 205
Query: 181 TQEEHRLIAEECKNLLYANLPNVAKAAFMS 210
TQEEHRLIAEECKNLLYANLPNVAKAAFMS
Sbjct: 206 TQEEHRLIAEECKNLLYANLPNVAKAAFMS 235
>ref|NP_049030.1| (NC_000852) similar to Synechocystis ORF s111635, corresponds to
GenBank Accession Number D90903 [Paramecium bursaria
Chlorella virus 1]
sp|O41156|A674_CHVP1 Putative protein A674R
pir||T18176 hypothetical protein A674R - Chlorella virus PBCV-1
gb|AAC96983.1| (U42580) similar to Synechocystis ORF s111635, corresponds to
GenBank Accession Number D90903 [Paramecium bursaria
Chlorella virus 1]
Length = 216
Score = 196 bits (499), Expect = 1e-049
Identities = 107/212 (50%), Positives = 139/212 (65%), Gaps = 15/212 (7%)
Query: 6 LISVTPD-------AEELIAYLARVSNKDAKLGDP-ADRLIRYLIKHGHWSPFEMAHMVV 57
LISVT AEELIAY ARVSN + ++ + A L++Y I+H HWS FE A M +
Sbjct: 5 LISVTKPVVEGVNTAEELIAYAARVSNPENQINNKTASGLLKYCIRHKHWSIFETAFMTL 64
Query: 58 EIETTRAIAPQILRHRSFSFQEFSQRYAVADLGEFEVP---ELRRQDTKNRQNSIDDLPA 114
E++T+R IA Q+LRHRSF FQEFSQRYA E P + R QD KNRQNS+D +P
Sbjct: 65 ELKTSRGIAAQVLRHRSFHFQEFSQRYASV----METPPPHQARFQDHKNRQNSLDTVPE 120
Query: 115 EIVAEFQSEIDEVFETTRVLYQRMLSYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQ 174
+ + +E ++++ + LY + L G+AKECAR ILPL+TPT +YMSGTIR WIHY +
Sbjct: 121 DDQTWWATEQEKLYAQSMELYNKALEKGIAKECARFILPLSTPTTIYMSGTIRDWIHYIE 180
Query: 175 LRCGNGTQEEHRLIAEECKNLLYANLPNVAKA 206
LR NGTQ EH +A CK + P++AKA
Sbjct: 181 LRTSNGTQREHIDLANACKEIFIKEFPSIAKA 212
>ref|NP_440394.1| (NC_000911) Thy1 protein homologue [Synechocystis sp. PCC 6803]
sp|P73053|YG35_SYNY3 Hypothetical protein sll1635
pir||S75160 hypothetical protein sll1635 - Synechocystis sp. (strain PCC 6803)
dbj|BAA17074.1| (D90903) ORF_ID:sll1635~Thy1 protein homologue [Synechocystis sp.
PCC 6803]
Length = 215
Score = 194 bits (494), Expect = 4e-049
Identities = 103/193 (53%), Positives = 128/193 (65%), Gaps = 3/193 (1%)
Query: 14 EELIAYLARVSNKDAKLGDPADRLIRYLIKHGHWSPFEMAHMVVEIETTRAIAPQILRHR 73
E LIAY ARVS+ + + +L+++ I+ GHWS FEM M +EI TTRAIAPQILRHR
Sbjct: 23 EGLIAYCARVSSPNQE-NPNYTKLLQFCIREGHWSIFEMVDMTLEITTTRAIAPQILRHR 81
Query: 74 SFSFQEFSQRYAVADLGEFEVPELRRQDTKNRQNSIDDLPAEIVAEFQSEIDEVFETTRV 133
SFSFQEFS RY+ A E+E E RRQD KNRQNS+DD F V+E +
Sbjct: 82 SFSFQEFSLRYSCAT--EYECYEARRQDVKNRQNSLDDFDESTKKWFNQAQAAVWEKSHQ 139
Query: 134 LYQRMLSYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQLRCGNGTQEEHRLIAEECK 193
LY+ L+ G+AKECAR ILPLNT T+LYM G++RSWIHY +RC TQ+EHR IA +
Sbjct: 140 LYEEALAKGIAKECARSILPLNTVTRLYMKGSVRSWIHYFSVRCDQATQKEHREIALAAR 199
Query: 194 NLLYANLPNVAKA 206
+ + P VA A
Sbjct: 200 KIFMKHFPTVAAA 212
>ref|NP_064749.1| (NC_002519) RP thymidylate synthase [Roseophage SIO1]
gb|AAG02594.1|AF189021_12 (AF189021) Roseophage SIO1 complete genome
Length = 222
Score = 86.7 bits (213), Expect = 1e-016
Identities = 57/191 (29%), Positives = 100/191 (51%), Gaps = 7/191 (3%)
Query: 19 YLARVSNKDAKLGDPADRLIRYLIKHGHWSPFEMAHMVVEIETTRAIAPQILRHRSFSFQ 78
Y + +D L +LI+YL KH H SPF A ++ +A Q+++H+ +
Sbjct: 34 YCGQSDGRDKGLSGRDTKLIKYLAKHKHISPFGHAFASFHVKAPIFVARQLVKHKFLRWN 93
Query: 79 EFSQRYAVADLGEFEVPELRRQDTKNRQNSIDDLPAEIVAEFQSEIDEVFETTRVLYQRM 138
E S+RY V D EF P++ R + +++ D + + E+ + + + Y +
Sbjct: 94 EISRRY-VDDEPEFYTPDVWRGRSADKKQGSDGV---VNPEYNPQYLD--NKIKFAYLQA 147
Query: 139 LSYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQLRCGNGTQEEHRLIAEECKNLLYA 198
L G++ E AR +LP +T T+ Y SG++ ++ C+LRC TQ E R++A++ + A
Sbjct: 148 LDIGISPEQARMLLPQSTMTEWYWSGSLDAFADMCRLRCKEDTQYESRVVADQISEKM-A 206
Query: 199 NLPNVAKAAFM 209
+L V+ AA M
Sbjct: 207 DLYPVSWAALM 217
>sp|P15808|THY1_DICDI Thy1 protein
pir||YXDOTC thymidylate synthase-complementing protein - slime mold
(Dictyostelium discoideum)
gb|AAA33257.1| (M27713) Thy1 protein [Dictyostelium discoideum]
Length = 260
Score = 84.0 bits (206), Expect = 9e-016
Identities = 62/194 (31%), Positives = 95/194 (48%), Gaps = 11/194 (5%)
Query: 3 KVSLISVTP-------DAEELIAYLARVSNKDAKLGDPADR-LIRYLIKHGHWSPFEMAH 54
KV+L+ P A+ I ARVS D+ LIRYL +H H SPFEM
Sbjct: 42 KVALVDTMPRLAPVGQTADFSICQAARVSYGAGTKKVTEDKGLIRYLYRHQHTSPFEMVE 101
Query: 55 MVVEIETTRAIAPQILRHRSFSFQEFSQRYAVADLGEF--EVPELRRQDTKNRQNSIDDL 112
IA Q +RHR+ + E+S RY+V + + E+R+Q T NRQ + L
Sbjct: 102 FKFHCVMPVFIARQWIRHRTANVNEYSARYSVLPDKFYHPSIEEVRKQSTSNRQGGEEAL 161
Query: 113 PAEIVAEFQSEIDEVFETTRVLYQRMLSYGVAKECARGILPLNTPTKLYMSGTIRSWIHY 172
+ EF +D+V E + Y +L G+++E R LP++ T+ Y + + H+
Sbjct: 162 EPKTAQEFLDYLDKVEENYKT-YNELLEKGLSRELGRIGLPVSIYTEWYWKIDLHNLFHF 220
Query: 173 CQLRCGNGTQEEHR 186
+LR + +Q+E R
Sbjct: 221 LRLRMDSHSQKEIR 234
>ref|NP_360042.1| (NC_003103) thy1 protein [Rickettsia conorii]
gb|AAL02943.1| (AE008605) thy1 protein [Rickettsia conorii]
Length = 294
Score = 79.7 bits (195), Expect = 2e-014
Identities = 64/210 (30%), Positives = 102/210 (48%), Gaps = 18/210 (8%)
Query: 14 EELIAYLARVS-NKDAKLGDPADRLIRYLIKHGHWSPFEMAHMVVEIETTRAIAPQILRH 72
+ I ARVS K K + LI YL++H H +PFEM + I+ IA Q +RH
Sbjct: 38 DSAIVQAARVSYGKGTKQLNQDKGLINYLLRHYHTTPFEMCDIKFHIKLPIFIARQWIRH 97
Query: 73 RSFSFQEFSQRYAVADLGEFEVPE---LRRQDTKNRQ-NSIDDLPAEIVAEFQSEIDEVF 128
R+ S E+S RY++ EF +PE + Q N+Q D LP E+ + + ++E
Sbjct: 98 RTASVNEYSARYSILG-NEFYLPEPANIASQSAVNKQCREGDSLPKEVAEKVLAILEEDA 156
Query: 129 ETTRVLYQRML------------SYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQLR 176
Y+ ++ + G+A+E AR L LN T+ Y + + +H+ +LR
Sbjct: 157 RQCYGHYKELMNADEEGNIIDENATGIARELARMNLTLNYYTEWYWKINLHNLLHFLRLR 216
Query: 177 CGNGTQEEHRLIAEECKNLLYANLPNVAKA 206
Q E R+ AE+ ++ A +P V +A
Sbjct: 217 ADPHAQYEIRVYAEKMLEIVKAWVPFVYEA 246
>ref|NP_563341.1| (NC_003366) conserved hypothetical protein [Clostridium
perfringens]
dbj|BAB82131.1| (AP003194) conserved hypothetical protein [Clostridium perfringens]
Length = 245
Score = 75.1 bits (183), Expect = 4e-013
Identities = 63/224 (28%), Positives = 101/224 (44%), Gaps = 25/224 (11%)
Query: 1 MSKVSLISVTPDAEELIAYLARVSNKDAKLGD--------PADRLIRYLIKHGHWSPFEM 52
M KV L+ TP+ E+ IA A++ + D A++ + L+ +GH SP E
Sbjct: 1 MLKVKLLQYTPEPEKTIAAAAKLCYSPVGVDDILENLTDEGAEKFLNMLMSYGHMSPIEH 60
Query: 53 AHMVVEIE-TTRAIAPQILRHRSFSFQEFSQRYAVADLGEFEVPELRRQDTKNRQNSIDD 111
+E +R++ Q++RHR S+ + SQRY D E+ VP D ++ ID
Sbjct: 61 VSFTFAVEGVSRSLTHQLVRHRIASYSQQSQRYVKLDQFEYIVPPAIENDEVAKKLFIDQ 120
Query: 112 LPAEIVAEFQSEIDEVFETTRVLYQRMLSYGV--------AKECARGILPLNTPTKLYMS 163
+ Q DE+ E L + +S G+ A E AR + P TK+ +
Sbjct: 121 MQGA-----QKAYDEIVER---LKDKYISEGIGEKPAEKKAIEDARYVFPNACETKIVFT 172
Query: 164 GTIRSWIHYCQLRCGNGTQEEHRLIAEECKNLLYANLPNVAKAA 207
RS +++ RC + Q E R +AE+ N + P + K A
Sbjct: 173 MNARSLMNFFHHRCCDRAQWEIRTMAEKMVNEVKKVAPILFKNA 216
>ref|NP_228259.1| (NC_000853) thy1 protein [Thermotoga maritima]
sp|Q9WYT0|Y449_THEMA Hypothetical protein TM0449
pir||B72375 thy1 protein - Thermotoga maritima (strain MSB8)
gb|AAD35532.1|AE001723_2 (AE001723) thy1 protein [Thermotoga maritima]
Length = 220
Score = 74.3 bits (181), Expect = 7e-013
Identities = 57/166 (34%), Positives = 81/166 (48%), Gaps = 12/166 (7%)
Query: 21 ARVSNKDAKLGDPADR-LIRYLIKHGHWSPFEMAHMVVEIETTRAIAPQILRHRSFSFQE 79
ARVS + DR LI YL+KHGH +PFE ++ +A Q RHR S+ E
Sbjct: 27 ARVSFDMGLKDEERDRHLIEYLMKHGHETPFEHIVFTFHVKAPIFVARQWFRHRIASYNE 86
Query: 80 FSQRYAVADLGEFEVPELRRQDTKNRQNSIDDLPAEIVAEFQSEI-DEVFETTRVLYQRM 138
S RY+ EF +P R + +P E V E SEI D+ + T Y +
Sbjct: 87 LSGRYSKLSY-EFYIPSPERLEGYK-----TTIPPERVTEKISEIVDKAYRT----YLEL 136
Query: 139 LSYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQLRCGNGTQEE 184
+ GV +E AR +LPLN T+ + + RS +++ LR + Q E
Sbjct: 137 IESGVPREVARIVLPLNLYTRFFWTVNARSLMNFLNLRADSHAQWE 182
>pdb|1KQ4|A Chain A, Crystal Structure Of Thy1-Complementing Protein (Tm0449)
From Thermotoga Maritima At 2.25 A Resolution
pdb|1KQ4|B Chain B, Crystal Structure Of Thy1-Complementing Protein (Tm0449)
From Thermotoga Maritima At 2.25 A Resolution
pdb|1KQ4|C Chain C, Crystal Structure Of Thy1-Complementing Protein (Tm0449)
From Thermotoga Maritima At 2.25 A Resolution
pdb|1KQ4|D Chain D, Crystal Structure Of Thy1-Complementing Protein (Tm0449)
From Thermotoga Maritima At 2.25 A Resolution
Length = 232
Score = 73.6 bits (179), Expect = 1e-012
Identities = 57/166 (34%), Positives = 79/166 (47%), Gaps = 12/166 (7%)
Query: 21 ARVSNKDAKLGDPADR-LIRYLIKHGHWSPFEMAHMVVEIETTRAIAPQILRHRSFSFQE 79
ARVS + DR LI YL KHGH +PFE ++ +A Q RHR S+ E
Sbjct: 39 ARVSFDXGLKDEERDRHLIEYLXKHGHETPFEHIVFTFHVKAPIFVARQWFRHRIASYNE 98
Query: 80 FSQRYAVADLGEFEVPELRRQDTKNRQNSIDDLPAEIVAEFQSEI-DEVFETTRVLYQRM 138
S RY+ EF +P R + +P E V E SEI D+ + T Y +
Sbjct: 99 LSGRYSKLSY-EFYIPSPERLEGYK-----TTIPPERVTEKISEIVDKAYRT----YLEL 148
Query: 139 LSYGVAKECARGILPLNTPTKLYMSGTIRSWIHYCQLRCGNGTQEE 184
+ GV +E AR +LPLN T+ + + RS ++ LR + Q E
Sbjct: 149 IESGVPREVARIVLPLNLYTRFFWTVNARSLXNFLNLRADSHAQWE 194
>ref|NP_280185.1| (NC_002607) Vng1325c [Halobacterium sp. NRC-1]
gb|AAG19665.1| (AE005054) Vng1325c [Halobacterium sp. NRC-1]
Length = 266
Score = 69.7 bits (169), Expect = 2e-011
Identities = 65/221 (29%), Positives = 89/221 (39%), Gaps = 36/221 (16%)
Query: 3 KVSLISVTPDAEELIAYLARVSNKDAKLGD-PAD----------------RLIRYLIKHG 45
+V L+ T + EELI AR +GD P D LI L+ G
Sbjct: 21 RVRLLEATENPEELICQSARNDYMSDWVGDTPLDTAMASVDGDTTDEKLSNLIAQLLTRG 80
Query: 46 HWSPFEMAHMVVEIE-TTRAIAPQILRHRSFSFQEFSQRYAVAD--------LGEFEV-- 94
H+ PFE IE +R+ Q+ RHR SF S RY D GE V
Sbjct: 81 HYGPFEHPSATFAIEGVSRSCMAQLTRHRHASFDVQSMRYVAFDDVDPAAVAEGELVVTP 140
Query: 95 PELRRQDTKNRQNSIDDLPAEIVAE----FQSEIDEVFETTRVLYQRMLSYGVAKECARG 150
P D R D+ E +AE FQ+ + E YQ +L G+ E AR
Sbjct: 141 PSATDPDWVGRNQDAGDIDEETMAEREAVFQASVRRAVED----YQELLGLGMPPEDARF 196
Query: 151 ILPLNTPTKLYMSGTIRSWIHYCQLRCGNGTQEEHRLIAEE 191
+LP+ T + ++ RS +H +R Q E R + E+
Sbjct: 197 VLPIGTEVNVVITLNPRSLMHVADMRAAADAQWEIRELTEQ 237
>ref|NP_601178.1| (NC_003450) COG1351:Predicted alternative thymidylate synthase
[Corynebacterium glutamicum]
Length = 250
Score = 69.7 bits (169), Expect = 2e-011
Identities = 46/167 (27%), Positives = 82/167 (48%), Gaps = 2/167 (1%)
Query: 38 IRYLIKHGHWSPFEMAHMVVEIE-TTRAIAPQILRHRSFSFQEFSQRYAVADLGEFEVPE 96
+R++++ GH + E A+ + I +R+ +++RHR FSF + SQR+ + E VP
Sbjct: 61 LRHIMEVGHTALLEHANATMYIRGISRSATHELVRHRHFSFSQLSQRFVHSGESEVVVPT 120
Query: 97 LRRQDTKNRQNSIDDLPAEIVAEFQSEIDEVFETTRVLYQRMLSYGVAKECARGILPLNT 156
L +D + R+ + + A F ++ + E +L A++ AR +LP T
Sbjct: 121 LIDEDPQLRELFMHAMDESRFA-FNELLNALEEKLGDEPNALLRKKQARQAARAVLPNAT 179
Query: 157 PTKLYMSGTIRSWIHYCQLRCGNGTQEEHRLIAEECKNLLYANLPNV 203
+++ +SG R+W H+ +R E R +A EC L P V
Sbjct: 180 ESRIVVSGNFRTWRHFIGMRASEHADVEIREVAVECLRKLQVAAPTV 226
>sp|Q9HQ52|YD25_HALN1 Hypothetical protein Vng1325c
Length = 247
Score = 69.7 bits (169), Expect = 2e-011
Identities = 65/221 (29%), Positives = 89/221 (39%), Gaps = 36/221 (16%)
Query: 3 KVSLISVTPDAEELIAYLARVSNKDAKLGD-PAD----------------RLIRYLIKHG 45
+V L+ T + EELI AR +GD P D LI L+ G
Sbjct: 2 RVRLLEATENPEELICQSARNDYMSDWVGDTPLDTAMASVDGDTTDEKLSNLIAQLLTRG 61
Query: 46 HWSPFEMAHMVVEIE-TTRAIAPQILRHRSFSFQEFSQRYAVAD--------LGEFEV-- 94
H+ PFE IE +R+ Q+ RHR SF S RY D GE V
Sbjct: 62 HYGPFEHPSATFAIEGVSRSCMAQLTRHRHASFDVQSMRYVAFDDVDPAAVAEGELVVTP 121
Query: 95 PELRRQDTKNRQNSIDDLPAEIVAE----FQSEIDEVFETTRVLYQRMLSYGVAKECARG 150
P D R D+ E +AE FQ+ + E YQ +L G+ E AR
Sbjct: 122 PSATDPDWVGRNQDAGDIDEETMAEREAVFQASVRRAVED----YQELLGLGMPPEDARF 177
Query: 151 ILPLNTPTKLYMSGTIRSWIHYCQLRCGNGTQEEHRLIAEE 191
+LP+ T + ++ RS +H +R Q E R + E+
Sbjct: 178 VLPIGTEVNVVITLNPRSLMHVADMRAAADAQWEIRELTEQ 218
>ref|NP_217270.1| (NC_000962) hypothetical protein Rv2754c [Mycobacterium
tuberculosis H37Rv]
ref|NP_337329.1| (NC_002755) conserved hypothetical protein [Mycobacterium
tuberculosis CDC1551]
sp|O33296|YR54_MYCTU Hypothetical protein Rv2754c
pir||A70880 hypothetical protein Rv2754c - Mycobacterium tuberculosis (strain
H37RV)
emb|CAA15550.1| (AL008967) hypothetical protein Rv2754c [Mycobacterium tuberculosis
H37Rv]
gb|AAK47143.1| (AE007110) conserved hypothetical protein [Mycobacterium
tuberculosis CDC1551]
Length = 250
Score = 66.2 bits (160), Expect = 2e-010
Identities = 47/171 (27%), Positives = 79/171 (45%), Gaps = 10/171 (5%)
Query: 38 IRYLIKHGHWSPFEMAHMVVEIE-TTRAIAPQILRHRSFSFQEFSQRYAVADLGEFEVPE 96
+R++I GH+S E A + I +R+ +++RHR FS+ + SQRY VP
Sbjct: 61 LRHIIDVGHFSVLEHASVSFYITGISRSCTHELIRHRHFSYSQLSQRYVPEKDSRVVVPP 120
Query: 97 LRRQDTKNRQ--NSIDDLPAEIVAEFQSEIDEVF--ETTRVLYQRMLSYGVAKECARGIL 152
D R D +E ++++ F + +L ++ A++ AR +L
Sbjct: 121 GMEDDADLRHILTEAADAARATYSELLAKLEAKFADQPNAILRRKQ-----ARQAARAVL 175
Query: 153 PLNTPTKLYMSGTIRSWIHYCQLRCGNGTQEEHRLIAEECKNLLYANLPNV 203
P T T++ ++G R+W H+ +R E R +A EC L A P V
Sbjct: 176 PNATETRIVVTGNYRAWRHFIAMRASEHADVEIRRLAIECLRQLAAVAPAV 226
>ref|NP_281248.1| (NC_002163) hypothetical protein Cj0026c [Campylobacter jejuni]
sp|Q9PJ85|Y026_CAMJE Hypothetical protein Cj0026c
pir||E81418 hypothetical protein Cj0026c [imported] - Campylobacter jejuni
(strain NCTC 11168)
emb|CAB72519.1| (AL139074) hypothetical protein Cj0026c [Campylobacter jejuni]
Length = 207
Score = 38.9 bits (89), Expect = 0.034
Identities = 43/171 (25%), Positives = 70/171 (40%), Gaps = 22/171 (12%)
Query: 43 KHGHWSPFEMAHMVVEIE-TTRAIAPQILRHRSFSFQEFSQRYAVADLGEFEVPELRRQD 101
K H S E + I+ +RA ++ RHR S S RY + +L R +
Sbjct: 45 KFKHASTLEHLNYTFYIQGISRACLQEVARHRHTSPSVKSTRYTLKEL---------RNE 95
Query: 102 TKNRQNSIDDLPAEIVAEFQSEID----EVFETTRVLYQRMLSYGVAKECARGILPLNTP 157
+ + ++ +V E+D + E R + Q+ +S +AK C LP +
Sbjct: 96 AEFKIGDFENASRYLVLCGNEEVDNASIKALENLRTILQKSISLDIAKYC----LPESYK 151
Query: 158 TKLYMSGTIRSWIHYCQLRCGNGTQEEHRLIAEECKNLLYANLPNVAKAAF 208
T+L ++ RS ++ LR E R +A N L+ LP K F
Sbjct: 152 TELTLTINARSLQNFISLRSSKSALWEIRNLA----NALFEALPQEHKFIF 198
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.321 0.134 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 112,866,701
Number of Sequences: 922426
Number of extensions: 4288100
Number of successful extensions: 9150
Number of sequences better than 5.0e-02: 34
Number of HSP's better than 0.1 without gapping: 19
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 9088
Number of HSP's gapped (non-prelim): 35
length of query: 210
length of database: 289,484,438
effective HSP length: 115
effective length of query: 95
effective length of database: 183,405,448
effective search space: 17423517560
effective search space used: 17423517560
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 88 (38.5 bits)
Query= orf60 [11748-12057]
(308 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570364.1| (NC_003390) DNA packaging protein A [Cyano... 629 e-179
ref|NP_052122.1| (NC_001271) DNA packaging protein B [Bacte... 199 3e-050
ref|NP_523347.1| (NC_003298) DNA packaging protein B [Bacte... 199 3e-050
ref|NP_042010.1| (NC_001604) gene 19, DNA maturation protei... 193 2e-048
sp|P10310|VDMB_BPT3 DNA MATURASE B (DNA PACKAGING PROTEIN B... 191 1e-047
>ref|NP_570364.1| (NC_003390) DNA packaging protein A [Cyanophage P60]
gb|AAL73302.1| (AF338467) DNA packaging protein A [Cyanophage P60]
Length = 308
Score = 629 bits (1622), Expect = e-179
Identities = 308/308 (100%), Positives = 308/308 (100%)
Query: 1 MGRSNFMLQFMLDTSLSDAEKFPLKFQDLIVTPLGQECAERYAWSADPRYMIKTLNPVGL 60
MGRSNFMLQFMLDTSLSDAEKFPLKFQDLIVTPLGQECAERYAWSADPRYMIKTLNPVGL
Sbjct: 1 MGRSNFMLQFMLDTSLSDAEKFPLKFQDLIVTPLGQECAERYAWSADPRYMIKTLNPVGL 60
Query: 61 PGDRFYGPMYIDEGMCDYDETIVSVDPSGRGTDETVAVVLSQANGYVFVRDLKAYRDGYS 120
PGDRFYGPMYIDEGMCDYDETIVSVDPSGRGTDETVAVVLSQANGYVFVRDLKAYRDGYS
Sbjct: 61 PGDRFYGPMYIDEGMCDYDETIVSVDPSGRGTDETVAVVLSQANGYVFVRDLKAYRDGYS 120
Query: 121 DATLSDIVRLGKRYKASRLLVESNFGDGMVCELFNRHIQQMGAGFSTEEVRATVRKEERI 180
DATLSDIVRLGKRYKASRLLVESNFGDGMVCELFNRHIQQMGAGFSTEEVRATVRKEERI
Sbjct: 121 DATLSDIVRLGKRYKASRLLVESNFGDGMVCELFNRHIQQMGAGFSTEEVRATVRKEERI 180
Query: 181 IETLEPVMNQHKLIIDPKVWEYDYASNPDAPPEKRLEYMLGYQMSRMCREKGAVKHDDRV 240
IETLEPVMNQHKLIIDPKVWEYDYASNPDAPPEKRLEYMLGYQMSRMCREKGAVKHDDRV
Sbjct: 181 IETLEPVMNQHKLIIDPKVWEYDYASNPDAPPEKRLEYMLGYQMSRMCREKGAVKHDDRV 240
Query: 241 DALAQGVQWFVDALAQSAHKAQALRKNEEWMAMMDAFENDAKAATDRLVLGLSFKGVKPA 300
DALAQGVQWFVDALAQSAHKAQALRKNEEWMAMMDAFENDAKAATDRLVLGLSFKGVKPA
Sbjct: 241 DALAQGVQWFVDALAQSAHKAQALRKNEEWMAMMDAFENDAKAATDRLVLGLSFKGVKPA 300
Query: 301 QNRVWDWS 308
QNRVWDWS
Sbjct: 301 QNRVWDWS 308
>ref|NP_052122.1| (NC_001271) DNA packaging protein B [Bacteriophage phiYeO3-12]
emb|CAB63643.1| (AJ251805) DNA packaging protein B [Bacteriophage phiYeO3-12]
Length = 587
Score = 199 bits (506), Expect = 3e-050
Identities = 111/263 (42%), Positives = 160/263 (60%), Gaps = 2/263 (0%)
Query: 2 GRSNFMLQFMLDTSLSDAEKFPLKFQDLIVTPLGQECAE-RYAWSADPRYMIKTLNPVGL 60
G++ F LQFML+ +LSDAEK+PL+ +D IV L E A Y W + + + L VGL
Sbjct: 280 GKAGFTLQFMLNPNLSDAEKYPLRLRDAIVCGLDFEKAPMHYQWLPNRQNRNEELPNVGL 339
Query: 61 PGDRFYGPMYIDEGMCDYDETIVSVDPSGRGTDETVAVVLSQANGYVFVRDLKAYRDGYS 120
GD + + Y + I+ +DPSGRG DET VL NGY+++ + +RDGYS
Sbjct: 340 KGDDIHSYHSCSQNTGQYQQRILVIDPSGRGKDETGYAVLFTLNGYIYLMEAGGFRDGYS 399
Query: 121 DATLSDIVRLGKRYKASRLLVESNFGDGMVCELFNRHIQQMGAGFSTEEVRATVRKEERI 180
D TL + + K++K ++ ESNFGDGM ++F+ + + A + EE+RA KE RI
Sbjct: 400 DKTLESLAKKAKQWKVQTVVFESNFGDGMFGKVFSPVLLKHHAA-AMEEIRARGMKELRI 458
Query: 181 IETLEPVMNQHKLIIDPKVWEYDYASNPDAPPEKRLEYMLGYQMSRMCREKGAVKHDDRV 240
+TLEPV++ H+L+I +V DY + DA + + Y L YQ++RM REKGAV HDDR+
Sbjct: 459 CDTLEPVLSTHRLVIRDEVIREDYQTARDADGKHDVRYSLFYQLTRMAREKGAVAHDDRL 518
Query: 241 DALAQGVQWFVDALAQSAHKAQA 263
DALA GV++ + A K +A
Sbjct: 519 DALALGVEFLRSTMELDAVKVEA 541
>ref|NP_523347.1| (NC_003298) DNA packaging protein B [Bacteriophage T3]
emb|CAC86310.1| (AJ318471) DNA packaging protein B [Bacteriophage T3]
Length = 586
Score = 199 bits (506), Expect = 3e-050
Identities = 111/263 (42%), Positives = 160/263 (60%), Gaps = 2/263 (0%)
Query: 2 GRSNFMLQFMLDTSLSDAEKFPLKFQDLIVTPLGQECAE-RYAWSADPRYMIKTLNPVGL 60
G++ F LQFML+ +LSDAEK+PL+ +D IV L E A Y W + + + L VGL
Sbjct: 279 GKAGFTLQFMLNPNLSDAEKYPLRLRDAIVCGLDFEKAPMHYQWLPNRQNRNEELPNVGL 338
Query: 61 PGDRFYGPMYIDEGMCDYDETIVSVDPSGRGTDETVAVVLSQANGYVFVRDLKAYRDGYS 120
GD + + Y + I+ +DPSGRG DET VL NGY+++ + +RDGYS
Sbjct: 339 KGDDIHSYHSCSQNTGQYQQRILVIDPSGRGKDETGYAVLFTLNGYIYLMEAGGFRDGYS 398
Query: 121 DATLSDIVRLGKRYKASRLLVESNFGDGMVCELFNRHIQQMGAGFSTEEVRATVRKEERI 180
D TL + + K++K ++ ESNFGDGM ++F+ + + A + EE+RA KE RI
Sbjct: 399 DKTLESLAKKAKQWKVQTVVFESNFGDGMFGKVFSPVLLKHHAA-ALEEIRARGMKELRI 457
Query: 181 IETLEPVMNQHKLIIDPKVWEYDYASNPDAPPEKRLEYMLGYQMSRMCREKGAVKHDDRV 240
+TLEPV++ H+L+I +V DY + DA + + Y L YQ++RM REKGAV HDDR+
Sbjct: 458 CDTLEPVLSTHRLVIRDEVIREDYQTARDADGKHDVRYSLFYQLTRMAREKGAVAHDDRL 517
Query: 241 DALAQGVQWFVDALAQSAHKAQA 263
DALA GV++ + A K +A
Sbjct: 518 DALALGVEFLRSTMELDAVKVEA 540
>ref|NP_042010.1| (NC_001604) gene 19, DNA maturation protein [Enterobacteria phage
T7]
sp|P03694|VDMB_BPT7 DNA MATURASE B (DNA PACKAGING PROTEIN B) (GP19)
pir||JVBPB7 DNA maturase B - phage T7
emb|CAA24440.1| (V01146) gene 19, DNA maturation protein [Enterobacteria phage T7]
Length = 586
Score = 193 bits (491), Expect = 2e-048
Identities = 108/262 (41%), Positives = 158/262 (60%), Gaps = 2/262 (0%)
Query: 2 GRSNFMLQFMLDTSLSDAEKFPLKFQDLIVTPLGQECAE-RYAWSADPRYMIKTLNPVGL 60
G++ F LQFML+ +LSDAEK+PL+ +D IV L E A Y W + + +I+ L VGL
Sbjct: 279 GKAGFTLQFMLNPNLSDAEKYPLRLRDAIVAALDLEKAPMHYQWLPNRQNIIEDLPNVGL 338
Query: 61 PGDRFYGPMYIDEGMCDYDETIVSVDPSGRGTDETVAVVLSQANGYVFVRDLKAYRDGYS 120
GD + Y + I+ +DPSGRG DET VL NGY+++ + +RDGYS
Sbjct: 339 KGDDLHTYHDCSNNSGQYQQKILVIDPSGRGKDETGYAVLYTLNGYIYLMEAGGFRDGYS 398
Query: 121 DATLSDIVRLGKRYKASRLLVESNFGDGMVCELFNRHIQQMGAGFSTEEVRATVRKEERI 180
D TL + + K++ ++ ESNFGDGM ++F+ I + EE+RA KE RI
Sbjct: 399 DKTLELLAKKAKQWGVQTVVYESNFGDGMFGKVFSP-ILLKHHNCAMEEIRARGMKEMRI 457
Query: 181 IETLEPVMNQHKLIIDPKVWEYDYASNPDAPPEKRLEYMLGYQMSRMCREKGAVKHDDRV 240
+TLEPVM H+L+I +V DY S D + ++Y L YQM+R+ REKGA+ HDDR+
Sbjct: 458 CDTLEPVMQTHRLVIRDEVIRADYQSARDVDGKHDVKYSLFYQMTRITREKGALAHDDRL 517
Query: 241 DALAQGVQWFVDALAQSAHKAQ 262
DALA G+++ +++ + K +
Sbjct: 518 DALALGIEYLRESMQLDSVKVE 539
>sp|P10310|VDMB_BPT3 DNA MATURASE B (DNA PACKAGING PROTEIN B) (GP19)
pir||JVBPB3 DNA maturase B - phage T3
gb|AAA92528.1| (M14784) DNA-packaging protein B [Bacteriophage T3]
Length = 586
Score = 191 bits (484), Expect = 1e-047
Identities = 107/263 (40%), Positives = 155/263 (58%), Gaps = 2/263 (0%)
Query: 2 GRSNFMLQFMLDTSLSDAEKFPLKFQDLIVTPLGQECAE-RYAWSADPRYMIKTLNPVGL 60
G++ F LQFML+ +LSDAEK+PL+ +D IV L E A Y W + + + L VGL
Sbjct: 279 GKAGFTLQFMLNPNLSDAEKYPLRLRDAIVCGLDFEKAPMHYQWLPNRQNRNEELPNVGL 338
Query: 61 PGDRFYGPMYIDEGMCDYDETIVSVDPSGRGTDETVAVVLSQANGYVFVRDLKAYRDGYS 120
GD + + Y + I+ +DPSGRG DET VL NGY+++ + + DGYS
Sbjct: 339 KGDDIHSYHSCSQNTGQYQQRILVIDPSGRGKDETGYAVLFTLNGYIYLMEAGGFPDGYS 398
Query: 121 DATLSDIVRLGKRYKASRLLVESNFGDGMVCELFNRHIQQMGAGFSTEEVRATVRKEERI 180
D TL + + +K ++ ESNFGDGM ++F+ + + A + EE+RA KE RI
Sbjct: 399 DKTLESLAKKANEWKVQTVVFESNFGDGMFGKVFSPVLLKHHAA-ALEEIRARGMKELRI 457
Query: 181 IETLEPVMNQHKLIIDPKVWEYDYASNPDAPPEKRLEYMLGYQMSRMCREKGAVKHDDRV 240
+TLEPV++ H+L+I +V DY + DA + + Y L YQ++RM REKGAV HDDR+
Sbjct: 458 CDTLEPVLSTHRLVIRDEVIREDYQTARDADGKHDVRYSLFYQLTRMAREKGAVAHDDRL 517
Query: 241 DALAQGVQWFVDALAQSAHKAQA 263
DA GV++ + A K +A
Sbjct: 518 DAFRLGVEFLRSTMELDAVKVEA 540
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.320 0.136 6.01e-154
Gapped
Lambda K H
0.267 0.0410 2.90e+006
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 180,079,239
Number of Sequences: 922426
Number of extensions: 7508062
Number of successful extensions: 14575
Number of sequences better than 5.0e-02: 5
Number of HSP's better than 0.1 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 14562
Number of HSP's gapped (non-prelim): 5
length of query: 308
length of database: 289,484,438
effective HSP length: 120
effective length of query: 188
effective length of database: 178,793,318
effective search space: 33613143784
effective search space used: 33613143784
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 91 (39.7 bits)
Query= orf61 [12067-12326]
(258 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570365.1| (NC_003390) DNA packaging protein B [Cyano... 528 e-149
sp|P10310|VDMB_BPT3 DNA MATURASE B (DNA PACKAGING PROTEIN B... 215 4e-055
ref|NP_523347.1| (NC_003298) DNA packaging protein B [Bacte... 214 5e-055
ref|NP_052122.1| (NC_001271) DNA packaging protein B [Bacte... 213 1e-054
ref|NP_042010.1| (NC_001604) gene 19, DNA maturation protei... 212 3e-054
>ref|NP_570365.1| (NC_003390) DNA packaging protein B [Cyanophage P60]
gb|AAL73303.1| (AF338467) DNA packaging protein B [Cyanophage P60]
Length = 258
Score = 528 bits (1361), Expect = e-149
Identities = 258/258 (100%), Positives = 258/258 (100%)
Query: 1 MDLQQLETQIKEDFRVFLTLVWRELDLPKPTRAQLHIADYLQHGPKRLQISAFRGVGKSW 60
MDLQQLETQIKEDFRVFLTLVWRELDLPKPTRAQLHIADYLQHGPKRLQISAFRGVGKSW
Sbjct: 1 MDLQQLETQIKEDFRVFLTLVWRELDLPKPTRAQLHIADYLQHGPKRLQISAFRGVGKSW 60
Query: 61 ITAAFVLWVLFNDPDKKIMVISASKERADNFSIFCQKLILDISWLNHLGPKDSDQRWSRI 120
ITAAFVLWVLFNDPDKKIMVISASKERADNFSIFCQKLILDISWLNHLGPKDSDQRWSRI
Sbjct: 61 ITAAFVLWVLFNDPDKKIMVISASKERADNFSIFCQKLILDISWLNHLGPKDSDQRWSRI 120
Query: 121 SFDVGPAKPHQAPSVKSVGITGQMTGSRAHLMIFDDVEVPANSATDMQREKLLQLVTEAE 180
SFDVGPAKPHQAPSVKSVGITGQMTGSRAHLMIFDDVEVPANSATDMQREKLLQLVTEAE
Sbjct: 121 SFDVGPAKPHQAPSVKSVGITGQMTGSRAHLMIFDDVEVPANSATDMQREKLLQLVTEAE 180
Query: 181 SILTPDDDSRILFLGTPQSTFTIYRKLAERSYRPFVWPCTAYPKDLIRLMRALPSPQHWL 240
SILTPDDDSRILFLGTPQSTFTIYRKLAERSYRPFVWPCTAYPKDLIRLMRALPSPQHWL
Sbjct: 181 SILTPDDDSRILFLGTPQSTFTIYRKLAERSYRPFVWPCTAYPKDLIRLMRALPSPQHWL 240
Query: 241 KTSRKEWRKDPPTDSRFS 258
KTSRKEWRKDPPTDSRFS
Sbjct: 241 KTSRKEWRKDPPTDSRFS 258
>sp|P10310|VDMB_BPT3 DNA MATURASE B (DNA PACKAGING PROTEIN B) (GP19)
pir||JVBPB3 DNA maturase B - phage T3
gb|AAA92528.1| (M14784) DNA-packaging protein B [Bacteriophage T3]
Length = 586
Score = 215 bits (547), Expect = 4e-055
Identities = 114/218 (52%), Positives = 155/218 (70%), Gaps = 4/218 (1%)
Query: 9 QIKEDFRVFLTLVWRELDLPKPTRAQLHIADYLQHGP-KRLQISAFRGVGKSWITAAFVL 67
Q+K DF FL ++W+ L+LP PT+ Q+ +A L +G K+ + AFRG+GKS+IT AFV+
Sbjct: 14 QLKGDFVAFLFVLWKALNLPVPTKCQIDMAKVLANGDNKKFILQAFRGIGKSFITCAFVV 73
Query: 68 WVLFNDPDKKIMVISASKERADNFSIFCQKLILDISWLNHLGPKDSDQRWSRISFDVGPA 127
W L+ DP KI+++SASKERAD SIF + +I + +L+ L P QR S ISFDVGPA
Sbjct: 74 WTLWRDPQLKILIVSASKERADLNSIFIKNIIDLLPFLDELKPSPG-QRDSVISFDVGPA 132
Query: 128 KPHQAPSVKSVGITGQMTGSRAHLMIFDDVEVPANSATDMQREKLLQLVTEAESILTPDD 187
KP +PSVKSVGITGQ+TGSRA ++I DDVE+P+NSAT REKL LV E ++L P
Sbjct: 133 KPDHSPSVKSVGITGQLTGSRADIIIADDVEIPSNSATQGAREKLWTLVQEFRALLKPLP 192
Query: 188 DSRILFLGTPQSTFTIYRKLAE-RSYRPFVWPCTAYPK 224
SR+++LGTPQ+ T+Y++L + R Y +WP YP+
Sbjct: 193 TSRVIYLGTPQTEMTLYKELEDNRGYTTIIWP-ALYPR 229
>ref|NP_523347.1| (NC_003298) DNA packaging protein B [Bacteriophage T3]
emb|CAC86310.1| (AJ318471) DNA packaging protein B [Bacteriophage T3]
Length = 586
Score = 214 bits (546), Expect = 5e-055
Identities = 114/218 (52%), Positives = 155/218 (70%), Gaps = 4/218 (1%)
Query: 9 QIKEDFRVFLTLVWRELDLPKPTRAQLHIADYLQHGP-KRLQISAFRGVGKSWITAAFVL 67
Q+K DF FL ++W+ L+LP PT+ Q+ +A L +G K+ + AFRG+GKS+IT AFV+
Sbjct: 14 QLKGDFVAFLFVLWKALNLPVPTKCQIDMAKVLANGDNKKFILQAFRGIGKSFITCAFVV 73
Query: 68 WVLFNDPDKKIMVISASKERADNFSIFCQKLILDISWLNHLGPKDSDQRWSRISFDVGPA 127
W L+ DP KI+++SASKERAD SIF + +I + +L L P+ QR S ISFDVGPA
Sbjct: 74 WTLWRDPQLKILIVSASKERADANSIFIKNIIDLLPFLAELKPRPG-QRDSVISFDVGPA 132
Query: 128 KPHQAPSVKSVGITGQMTGSRAHLMIFDDVEVPANSATDMQREKLLQLVTEAESILTPDD 187
KP +PSVKSVGITGQ+TGSRA ++I DDVE+P+NSAT REKL LV E ++L P
Sbjct: 133 KPDHSPSVKSVGITGQLTGSRADIIIADDVEIPSNSATQGAREKLWTLVQEFAALLKPLP 192
Query: 188 DSRILFLGTPQSTFTIYRKLAE-RSYRPFVWPCTAYPK 224
SR+++LGTPQ+ T+Y++L + R Y +WP YP+
Sbjct: 193 TSRVIYLGTPQTEMTLYKELEDNRGYTTIIWP-ALYPR 229
>ref|NP_052122.1| (NC_001271) DNA packaging protein B [Bacteriophage phiYeO3-12]
emb|CAB63643.1| (AJ251805) DNA packaging protein B [Bacteriophage phiYeO3-12]
Length = 587
Score = 213 bits (542), Expect = 1e-054
Identities = 114/218 (52%), Positives = 154/218 (70%), Gaps = 4/218 (1%)
Query: 9 QIKEDFRVFLTLVWRELDLPKPTRAQLHIADYLQHGP-KRLQISAFRGVGKSWITAAFVL 67
Q+K DF FL ++W+ L LP PT+ Q+ +A L +G K+ + AFRG+GKS+IT AFV+
Sbjct: 15 QLKGDFVAFLFVLWKALALPPPTKCQIDMARCLANGDNKKFILQAFRGIGKSFITCAFVV 74
Query: 68 WVLFNDPDKKIMVISASKERADNFSIFCQKLILDISWLNHLGPKDSDQRWSRISFDVGPA 127
W L+ DP KI+++SASKERAD SIF + +I + +L L P+ QR S ISFDVGPA
Sbjct: 75 WTLWRDPQLKILIVSASKERADANSIFIKNIIDLLPFLAELKPRPG-QRDSVISFDVGPA 133
Query: 128 KPHQAPSVKSVGITGQMTGSRAHLMIFDDVEVPANSATDMQREKLLQLVTEAESILTPDD 187
KP +PSVKSVGITGQ+TGSRA ++I DDVE+P+NSAT REKL LV E ++L P
Sbjct: 134 KPDHSPSVKSVGITGQLTGSRADIIIADDVEIPSNSATQGAREKLWTLVQEFAALLKPLP 193
Query: 188 DSRILFLGTPQSTFTIYRKLAE-RSYRPFVWPCTAYPK 224
SR+++LGTPQ+ T+Y++L + R Y +WP YP+
Sbjct: 194 TSRVIYLGTPQTEMTLYKELEDNRGYTTIIWP-ALYPR 230
>ref|NP_042010.1| (NC_001604) gene 19, DNA maturation protein [Enterobacteria phage
T7]
sp|P03694|VDMB_BPT7 DNA MATURASE B (DNA PACKAGING PROTEIN B) (GP19)
pir||JVBPB7 DNA maturase B - phage T7
emb|CAA24440.1| (V01146) gene 19, DNA maturation protein [Enterobacteria phage T7]
Length = 586
Score = 212 bits (540), Expect = 3e-054
Identities = 113/218 (51%), Positives = 155/218 (70%), Gaps = 4/218 (1%)
Query: 9 QIKEDFRVFLTLVWRELDLPKPTRAQLHIADYLQHGP-KRLQISAFRGVGKSWITAAFVL 67
Q+K DF FL ++W+ L+LP PT+ Q+ +A L +G K+ + AFRG+GKS+IT AFV+
Sbjct: 14 QLKGDFVAFLFVLWKALNLPVPTKCQIDMAKVLANGDNKKFILQAFRGIGKSFITCAFVV 73
Query: 68 WVLFNDPDKKIMVISASKERADNFSIFCQKLILDISWLNHLGPKDSDQRWSRISFDVGPA 127
W L+ DP KI+++SASKERAD SIF + +I + +L+ L P+ QR S ISFDVGPA
Sbjct: 74 WSLWRDPQLKILIVSASKERADANSIFIKNIIDLLPFLSELKPRPG-QRDSVISFDVGPA 132
Query: 128 KPHQAPSVKSVGITGQMTGSRAHLMIFDDVEVPANSATDMQREKLLQLVTEAESILTPDD 187
P +PSVKSVGITGQ+TGSRA ++I DDVE+P+NSAT REKL LV E ++L P
Sbjct: 133 NPDHSPSVKSVGITGQLTGSRADIIIADDVEIPSNSATMGAREKLWTLVQEFAALLKPLP 192
Query: 188 DSRILFLGTPQSTFTIYRKLAE-RSYRPFVWPCTAYPK 224
SR+++LGTPQ+ T+Y++L + R Y +WP YP+
Sbjct: 193 SSRVIYLGTPQTEMTLYKELEDNRGYTTIIWP-ALYPR 229
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.322 0.136 0.000
Gapped
Lambda K H
0.267 0.0410 0.000
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 157,965,140
Number of Sequences: 922426
Number of extensions: 6281731
Number of successful extensions: 12446
Number of sequences better than 5.0e-02: 5
Number of HSP's better than 0.1 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 12433
Number of HSP's gapped (non-prelim): 5
length of query: 258
length of database: 289,484,438
effective HSP length: 118
effective length of query: 140
effective length of database: 180,638,170
effective search space: 25289343800
effective search space used: 25289343800
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 89 (38.9 bits)
Query= orf62 [12389-12520]
(130 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570366.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 260 1e-069
>ref|NP_570366.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73304.1| (AF338467) unknown [Cyanophage P60]
Length = 130
Score = 260 bits (665), Expect = 1e-069
Identities = 130/130 (100%), Positives = 130/130 (100%)
Query: 1 MTVGNHIIVGAGNQLRLLKKDGSNRVALNMENITANRTVSFPDKGGTIAMTSDLGSGFTP 60
MTVGNHIIVGAGNQLRLLKKDGSNRVALNMENITANRTVSFPDKGGTIAMTSDLGSGFTP
Sbjct: 1 MTVGNHIIVGAGNQLRLLKKDGSNRVALNMENITANRTVSFPDKGGTIAMTSDLGSGFTP 60
Query: 61 AFITVTNSTAQSIQDTMQDVVFNSTEVSQGMTLTGGKVRIDTAGTYVIHVIWHGYQTSGN 120
AFITVTNSTAQSIQDTMQDVVFNSTEVSQGMTLTGGKVRIDTAGTYVIHVIWHGYQTSGN
Sbjct: 61 AFITVTNSTAQSIQDTMQDVVFNSTEVSQGMTLTGGKVRIDTAGTYVIHVIWHGYQTSGN 120
Query: 121 NRRTSKPFSS 130
NRRTSKPFSS
Sbjct: 121 NRRTSKPFSS 130
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.130 0.000
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 71,885,126
Number of Sequences: 922426
Number of extensions: 2578741
Number of successful extensions: 6186
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6185
Number of HSP's gapped (non-prelim): 1
length of query: 130
length of database: 289,484,438
effective HSP length: 106
effective length of query: 24
effective length of database: 191,707,282
effective search space: 4600974768
effective search space used: 4600974768
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 83 (36.6 bits)
Query= orf63 [12515-12602]
(86 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570367.1| (NC_003390) collagen alpha 1(I) chain prec... 179 5e-045
>ref|NP_570367.1| (NC_003390) collagen alpha 1(I) chain precursor [Cyanophage P60]
gb|AAL73305.1| (AF338467) collagen alpha 1(I) chain precursor [Cyanophage P60]
Length = 302
Score = 179 bits (454), Expect = 5e-045
Identities = 86/86 (100%), Positives = 86/86 (100%)
Query: 1 MSTAALTVDINSDIASASRAIIYAPGSNGQASLKYNGSFLINPLNGTLTAPTFIGDLTGD 60
MSTAALTVDINSDIASASRAIIYAPGSNGQASLKYNGSFLINPLNGTLTAPTFIGDLTGD
Sbjct: 217 MSTAALTVDINSDIASASRAIIYAPGSNGQASLKYNGSFLINPLNGTLTAPTFIGDLTGD 276
Query: 61 VSVATISYLGFEHRCYSHRQPHNDCW 86
VSVATISYLGFEHRCYSHRQPHNDCW
Sbjct: 277 VSVATISYLGFEHRCYSHRQPHNDCW 302
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.318 0.133 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 48,263,161
Number of Sequences: 922426
Number of extensions: 1721679
Number of successful extensions: 3154
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3153
Number of HSP's gapped (non-prelim): 1
length of query: 86
length of database: 289,484,438
effective HSP length: 62
effective length of query: 24
effective length of database: 232,294,026
effective search space: 5575056624
effective search space used: 5575056624
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 84 (37.0 bits)
Query= orf64 [12601-12691]
(89 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.322 0.135 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,939,729
Number of Sequences: 922426
Number of extensions: 621248
Number of successful extensions: 1547
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1547
Number of HSP's gapped (non-prelim): 0
length of query: 89
length of database: 289,484,438
effective HSP length: 65
effective length of query: 24
effective length of database: 229,526,748
effective search space: 5508641952
effective search space used: 5508641952
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf65 [12692-12806]
(113 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
gb|AAF45987.1| (AE003432) CG2861 gene product [Drosophila m... 41 0.002
ref|NP_044542.1| (NC_001798) virion protein [human herpesvi... 39 0.007
>gb|AAF45987.1| (AE003432) CG2861 gene product [Drosophila melanogaster]
Length = 861
Score = 41.2 bits (95), Expect = 0.002
Identities = 36/108 (33%), Positives = 52/108 (47%), Gaps = 15/108 (13%)
Query: 11 PKAQKALKVSKVILAPRVLKACRVSRGYKALRDSQEPMEQTEPRVHRESRASRV------ 64
PKA K K +V APRV KA RV + + + +EP EP+ ++ +A RV
Sbjct: 672 PKAPKVPKAPRVPKAPRVPKAPRVPKAPRVPKPPKEPKPPKEPKPPKQPKAPRVPKEPKP 731
Query: 65 ------YRAHRAFQGPMV-QTPLFRVLKVQKVIKVTQVMLAPRDLKVT 105
+A RA + P V + P + KV K+ K +V APR K +
Sbjct: 732 PKVPKEPKAPRAPRAPRVPKAP--KEPKVPKIPKNPRVPKAPRQPKAS 777
Score = 37.4 bits (85), Expect = 0.028
Identities = 28/97 (28%), Positives = 47/97 (47%), Gaps = 1/97 (1%)
Query: 11 PKAQKALKVSKVILAPRVLKACRVSRGYKALRDSQEPMEQTEPRVHRESRASRVYRAHRA 70
PKA K K KV APRV KA RV + + + + P EP+ +E + + +A R
Sbjct: 666 PKAPKEPKAPKVPKAPRVPKAPRVPKAPRVPKAPRVPKPPKEPKPPKEPKPPKQPKAPRV 725
Query: 71 FQGPMVQTPLFRVLKVQKVIKVTQVMLAPRDLKVTQV 107
+ P + + K + + +V AP++ KV ++
Sbjct: 726 PKEPK-PPKVPKEPKAPRAPRAPRVPKAPKEPKVPKI 761
>ref|NP_044542.1| (NC_001798) virion protein [human herpesvirus 2]
sp|P89479|RNB_HSV2H Potential RNA-binding protein
emb|CAB06719.1| (Z86099) virion protein [human herpesvirus 2]
Length = 151
Score = 39.3 bits (90), Expect = 0.007
Identities = 25/74 (33%), Positives = 37/74 (49%)
Query: 1 VLTVLTVLLAPKAQKALKVSKVILAPRVLKACRVSRGYKALRDSQEPMEQTEPRVHRESR 60
+L V L PK +A++ S++ APRV + RV R + R + P E PR+ R+ R
Sbjct: 68 LLRVCAALSIPKPSEAVRPSRIPRAPRVPREPRVPREPREPRVPRSPREPRVPRIPRDPR 127
Query: 61 ASRVYRAHRAFQGP 74
R R R + P
Sbjct: 128 PPRPPRVPREPRPP 141
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.324 0.135 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 48,182,009
Number of Sequences: 922426
Number of extensions: 1430646
Number of successful extensions: 6664
Number of sequences better than 5.0e-02: 2
Number of HSP's better than 0.1 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6629
Number of HSP's gapped (non-prelim): 14
length of query: 113
length of database: 289,484,438
effective HSP length: 89
effective length of query: 24
effective length of database: 207,388,524
effective search space: 4977324576
effective search space used: 4977324576
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 83 (36.6 bits)
Query= orf66 [12842-12897]
(54 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570368.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 104 2e-022
>ref|NP_570368.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73306.1| (AF338467) unknown [Cyanophage P60]
Length = 54
Score = 104 bits (260), Expect = 2e-022
Identities = 54/54 (100%), Positives = 54/54 (100%)
Query: 1 MVDTGLIAEMLSPGGTGELTQTLVLTSRSMQTASQMQQALLDHRDLLELTVQMV 54
MVDTGLIAEMLSPGGTGELTQTLVLTSRSMQTASQMQQALLDHRDLLELTVQMV
Sbjct: 1 MVDTGLIAEMLSPGGTGELTQTLVLTSRSMQTASQMQQALLDHRDLLELTVQMV 54
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.316 0.128 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,633,807
Number of Sequences: 922426
Number of extensions: 579368
Number of successful extensions: 1529
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1528
Number of HSP's gapped (non-prelim): 1
length of query: 54
length of database: 289,484,438
effective HSP length: 30
effective length of query: 24
effective length of database: 261,811,658
effective search space: 6283479792
effective search space used: 6283479792
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 84 (37.0 bits)
Query= orf67 [12913-13105]
(191 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570369.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 300 4e-081
>ref|NP_570369.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73307.1| (AF338467) unknown [Cyanophage P60]
Length = 224
Score = 300 bits (769), Expect = 4e-081
Identities = 152/191 (79%), Positives = 152/191 (79%)
Query: 1 MSHEQAAGAIGSIMVETGSQDLMNLDVVEKDAKAGRGMMQYTGPRRVAYDRARTEALRSG 60
MSHEQAAGAIGSIMVETGSQDLMNLDVVEKDAKAGRGMMQYTGPRRVAYDRARTEALRSG
Sbjct: 34 MSHEQAAGAIGSIMVETGSQDLMNLDVVEKDAKAGRGMMQYTGPRRVAYDRARTEALRSG 93
Query: 61 ADPNSMAWQIKYMAEEYKGKHDPAPGKSLVSWSKPLEKFXXXXXXXXXXXXXXXXXXXXX 120
ADPNSMAWQIKYMAEEYKGKHDPAPGKSLVSWSKPLEKF
Sbjct: 94 ADPNSMAWQIKYMAEEYKGKHDPAPGKSLVSWSKPLEKFSSRKYASAAEAAKAFTGSAAS 153
Query: 121 GQGYLRPGKPHFDKRMSAAESVARAYAGRGALEPLKGAGXXXXXXXXXXXXXXXXXXSHG 180
GQGYLRPGKPHFDKRMSAAESVARAYAGRGALEPLKGAG SHG
Sbjct: 154 GQGYLRPGKPHFDKRMSAAESVARAYAGRGALEPLKGAGVTPQVPSTPKPPQPLPSPSHG 213
Query: 181 DPMGLMIRPTF 191
DPMGLMIRPTF
Sbjct: 214 DPMGLMIRPTF 224
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.132 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 91,250,624
Number of Sequences: 922426
Number of extensions: 2974195
Number of successful extensions: 3992
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3990
Number of HSP's gapped (non-prelim): 1
length of query: 191
length of database: 289,484,438
effective HSP length: 114
effective length of query: 77
effective length of database: 184,327,874
effective search space: 14193246298
effective search space used: 14193246298
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 87 (38.1 bits)
Query= orf68 [13104-13227]
(122 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570370.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 217 1e-056
>ref|NP_570370.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73308.1| (AF338467) unknown [Cyanophage P60]
Length = 122
Score = 217 bits (553), Expect = 1e-056
Identities = 105/122 (86%), Positives = 105/122 (86%)
Query: 1 MKPIEFYLNEFKFMAGWLKKLPLPIAFFCLSWLKWLELKYIDAKASTSVSKAIREYNETV 60
MKPIEFYLNEFKFMAGWLKKLPLPIAFFCLSWLKWLELKYIDAKASTSVSKAIREYNETV
Sbjct: 1 MKPIEFYLNEFKFMAGWLKKLPLPIAFFCLSWLKWLELKYIDAKASTSVSKAIREYNETV 60
Query: 61 RTPEGLLPPERHTEPSEVPGLDIISISSPWQNXXXXXXXXXXXXXXXXXAKQALPKTTDS 120
RTPEGLLPPERHTEPSEVPGLDIISISSPWQN AKQALPKTTDS
Sbjct: 61 RTPEGLLPPERHTEPSEVPGLDIISISSPWQNSRSSDQRTQTPSTTTSQAKQALPKTTDS 120
Query: 121 HQ 122
HQ
Sbjct: 121 HQ 122
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.317 0.134 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 66,479,122
Number of Sequences: 922426
Number of extensions: 2251490
Number of successful extensions: 6438
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6437
Number of HSP's gapped (non-prelim): 1
length of query: 122
length of database: 289,484,438
effective HSP length: 98
effective length of query: 24
effective length of database: 199,086,690
effective search space: 4778080560
effective search space used: 4778080560
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 83 (36.6 bits)
Query= orf69 [13225-13268]
(42 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.308 0.121 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,836,764
Number of Sequences: 922426
Number of extensions: 470411
Number of successful extensions: 1715
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1715
Number of HSP's gapped (non-prelim): 0
length of query: 42
length of database: 289,484,438
effective HSP length: 18
effective length of query: 24
effective length of database: 272,880,770
effective search space: 6549138480
effective search space used: 6549138480
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 84 (37.0 bits)
Query= orf70 [13347-13424]
(76 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570372.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 148 1e-035
>ref|NP_570372.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73310.1| (AF338467) unknown [Cyanophage P60]
Length = 76
Score = 148 bits (373), Expect = 1e-035
Identities = 76/76 (100%), Positives = 76/76 (100%)
Query: 1 MTAETFSVVVRPASTWSTEKKKGGSYKLDAAAVTALGLVSTADDINLVLDLLSECAARQH 60
MTAETFSVVVRPASTWSTEKKKGGSYKLDAAAVTALGLVSTADDINLVLDLLSECAARQH
Sbjct: 1 MTAETFSVVVRPASTWSTEKKKGGSYKLDAAAVTALGLVSTADDINLVLDLLSECAARQH 60
Query: 61 VVAADSIGYATSVDNS 76
VVAADSIGYATSVDNS
Sbjct: 61 VVAADSIGYATSVDNS 76
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.311 0.123 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,807,131
Number of Sequences: 922426
Number of extensions: 1050878
Number of successful extensions: 1841
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1840
Number of HSP's gapped (non-prelim): 1
length of query: 76
length of database: 289,484,438
effective HSP length: 52
effective length of query: 24
effective length of database: 241,518,286
effective search space: 5796438864
effective search space used: 5796438864
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf71 [13424-13567]
(142 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570373.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 281 8e-076
>ref|NP_570373.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73311.1| (AF338467) unknown [Cyanophage P60]
Length = 142
Score = 281 bits (719), Expect = 8e-076
Identities = 142/142 (100%), Positives = 142/142 (100%)
Query: 1 MPVDTTFLPKTNGLVFADRLTARADKGRVFLYTVAGDEIVEIVPNIEPLSVVIDGVPYDF 60
MPVDTTFLPKTNGLVFADRLTARADKGRVFLYTVAGDEIVEIVPNIEPLSVVIDGVPYDF
Sbjct: 1 MPVDTTFLPKTNGLVFADRLTARADKGRVFLYTVAGDEIVEIVPNIEPLSVVIDGVPYDF 60
Query: 61 ENDDPIVVSLGGSKNVIVRSLGDATPTFAWTATGGDVVFTPADSGLSTLTFNSTGLIRAK 120
ENDDPIVVSLGGSKNVIVRSLGDATPTFAWTATGGDVVFTPADSGLSTLTFNSTGLIRAK
Sbjct: 61 ENDDPIVVSLGGSKNVIVRSLGDATPTFAWTATGGDVVFTPADSGLSTLTFNSTGLIRAK 120
Query: 121 CTLADVESVEGIVETSIFFLVT 142
CTLADVESVEGIVETSIFFLVT
Sbjct: 121 CTLADVESVEGIVETSIFFLVT 142
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.319 0.139 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 83,912,168
Number of Sequences: 922426
Number of extensions: 3579841
Number of successful extensions: 8067
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 8066
Number of HSP's gapped (non-prelim): 1
length of query: 142
length of database: 289,484,438
effective HSP length: 118
effective length of query: 24
effective length of database: 180,638,170
effective search space: 4335316080
effective search space used: 4335316080
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 83 (36.6 bits)
Query= orf72 [13567-13681]
(113 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570374.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 230 2e-060
>ref|NP_570374.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73312.1| (AF338467) unknown [Cyanophage P60]
Length = 113
Score = 230 bits (586), Expect = 2e-060
Identities = 113/113 (100%), Positives = 113/113 (100%)
Query: 1 MRANLAIASNTYTPNQVGSSLCVGKAVSTNIGGVAWDGGVNNLIISDQVLVGPQVDEFFQ 60
MRANLAIASNTYTPNQVGSSLCVGKAVSTNIGGVAWDGGVNNLIISDQVLVGPQVDEFFQ
Sbjct: 1 MRANLAIASNTYTPNQVGSSLCVGKAVSTNIGGVAWDGGVNNLIISDQVLVGPQVDEFFQ 60
Query: 61 TGEDFTTHEYYADLTTYARLGEDTFPAVVDTLGNATGSLVNGAANDFVDVPEA 113
TGEDFTTHEYYADLTTYARLGEDTFPAVVDTLGNATGSLVNGAANDFVDVPEA
Sbjct: 61 TGEDFTTHEYYADLTTYARLGEDTFPAVVDTLGNATGSLVNGAANDFVDVPEA 113
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.314 0.133 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 65,887,898
Number of Sequences: 922426
Number of extensions: 2476883
Number of successful extensions: 3251
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3250
Number of HSP's gapped (non-prelim): 1
length of query: 113
length of database: 289,484,438
effective HSP length: 89
effective length of query: 24
effective length of database: 207,388,524
effective search space: 4977324576
effective search space used: 4977324576
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 83 (36.6 bits)
Query= orf73 [13694-13886]
(191 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570375.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 387 e-107
ref|NP_214869.1| (NC_000962) PPE [Mycobacterium tuberculosi... 39 0.036
ref|NP_334778.1| (NC_002755) PPE family protein [Mycobacter... 39 0.036
>ref|NP_570375.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73313.1| (AF338467) unknown [Cyanophage P60]
Length = 191
Score = 387 bits (994), Expect = e-107
Identities = 191/191 (100%), Positives = 191/191 (100%)
Query: 1 MTTNIIDVLGINTLALRGLGTEFNRFSRFFQSVEDARQAVATNDYVPTPGLTNAVLILGV 60
MTTNIIDVLGINTLALRGLGTEFNRFSRFFQSVEDARQAVATNDYVPTPGLTNAVLILGV
Sbjct: 1 MTTNIIDVLGINTLALRGLGTEFNRFSRFFQSVEDARQAVATNDYVPTPGLTNAVLILGV 60
Query: 61 GIAVYSFDLQDFVAIQDLQAAGNQASRYIELDGANDYIEFTGLGGGTENILNWNQNWSIG 120
GIAVYSFDLQDFVAIQDLQAAGNQASRYIELDGANDYIEFTGLGGGTENILNWNQNWSIG
Sbjct: 61 GIAVYSFDLQDFVAIQDLQAAGNQASRYIELDGANDYIEFTGLGGGTENILNWNQNWSIG 120
Query: 121 LTLVGLTDSASDNQMMTLFSNGNNAIFLRRGGTNWGMYVTGDANLQHGANTWYAPNATSR 180
LTLVGLTDSASDNQMMTLFSNGNNAIFLRRGGTNWGMYVTGDANLQHGANTWYAPNATSR
Sbjct: 121 LTLVGLTDSASDNQMMTLFSNGNNAIFLRRGGTNWGMYVTGDANLQHGANTWYAPNATSR 180
Query: 181 LLFTHELPLVA 191
LLFTHELPLVA
Sbjct: 181 LLFTHELPLVA 191
>ref|NP_214869.1| (NC_000962) PPE [Mycobacterium tuberculosis H37Rv]
pir||D70575 probable PPE protein - Mycobacterium tuberculosis (strain H37RV)
emb|CAB08587.1| (Z95324) PPE [Mycobacterium tuberculosis H37Rv]
Length = 3300
Score = 38.5 bits (88), Expect = 0.036
Identities = 23/64 (35%), Positives = 34/64 (52%), Gaps = 3/64 (4%)
Query: 102 GLGGGTENILNWNQNWSIGLTLVGLTDSASDNQMMTLFSNGNNAIFLRRGGT-NWGMYVT 160
GL G + N+ W+ G GL +S ++N + LF++G I + GT NWG+ T
Sbjct: 1575 GLSGDNQQGFNFAGGWNSGSGNSGLFNSGTNN--IGLFNSGTGNIGIGNSGTGNWGIANT 1632
Query: 161 GDAN 164
GD N
Sbjct: 1633 GDTN 1636
>ref|NP_334778.1| (NC_002755) PPE family protein [Mycobacterium tuberculosis CDC1551]
gb|AAK44592.1| (AE006942) PPE family protein [Mycobacterium tuberculosis CDC1551]
Length = 3275
Score = 38.5 bits (88), Expect = 0.036
Identities = 23/64 (35%), Positives = 34/64 (52%), Gaps = 3/64 (4%)
Query: 102 GLGGGTENILNWNQNWSIGLTLVGLTDSASDNQMMTLFSNGNNAIFLRRGGT-NWGMYVT 160
GL G + N+ W+ G GL +S ++N + LF++G I + GT NWG+ T
Sbjct: 1575 GLSGDNQQGFNFAGGWNSGSGNSGLFNSGTNN--IGLFNSGTGNIGIGNSGTGNWGIANT 1632
Query: 161 GDAN 164
GD N
Sbjct: 1633 GDTN 1636
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.319 0.136 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 114,551,248
Number of Sequences: 922426
Number of extensions: 4841835
Number of successful extensions: 10436
Number of sequences better than 5.0e-02: 3
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 10422
Number of HSP's gapped (non-prelim): 16
length of query: 191
length of database: 289,484,438
effective HSP length: 114
effective length of query: 77
effective length of database: 184,327,874
effective search space: 14193246298
effective search space used: 14193246298
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 87 (38.1 bits)
Query= orf74 [13884-13967]
(82 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570376.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 170 2e-042
>ref|NP_570376.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73314.1| (AF338467) unknown [Cyanophage P60]
Length = 82
Score = 170 bits (431), Expect = 2e-042
Identities = 82/82 (100%), Positives = 82/82 (100%)
Query: 1 MDYQPGDQITQRGVVYTYNGSAWSYIYDADPGGVSTSITVSFTPTPDEDPSTLLVNDQVV 60
MDYQPGDQITQRGVVYTYNGSAWSYIYDADPGGVSTSITVSFTPTPDEDPSTLLVNDQVV
Sbjct: 1 MDYQPGDQITQRGVVYTYNGSAWSYIYDADPGGVSTSITVSFTPTPDEDPSTLLVNDQVV 60
Query: 61 YDFQVLSGLATGALYANTAQAG 82
YDFQVLSGLATGALYANTAQAG
Sbjct: 61 YDFQVLSGLATGALYANTAQAG 82
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.313 0.132 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 53,814,199
Number of Sequences: 922426
Number of extensions: 2086085
Number of successful extensions: 3500
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3499
Number of HSP's gapped (non-prelim): 1
length of query: 82
length of database: 289,484,438
effective HSP length: 58
effective length of query: 24
effective length of database: 235,983,730
effective search space: 5663609520
effective search space used: 5663609520
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf75 [14152-14230]
(77 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570379.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 151 2e-036
>ref|NP_570379.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73317.1| (AF338467) unknown [Cyanophage P60]
Length = 77
Score = 151 bits (381), Expect = 2e-036
Identities = 77/77 (100%), Positives = 77/77 (100%)
Query: 1 MAKRASEDQFDLLHSLLTTELINRIRSGEATTADLRAASDWLKSNDITGVAVANSPLAAL 60
MAKRASEDQFDLLHSLLTTELINRIRSGEATTADLRAASDWLKSNDITGVAVANSPLAAL
Sbjct: 1 MAKRASEDQFDLLHSLLTTELINRIRSGEATTADLRAASDWLKSNDITGVAVANSPLAAL 60
Query: 61 AGLVPDDLTFEDVQRHL 77
AGLVPDDLTFEDVQRHL
Sbjct: 61 AGLVPDDLTFEDVQRHL 77
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.316 0.130 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,345,811
Number of Sequences: 922426
Number of extensions: 1088226
Number of successful extensions: 3123
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 3122
Number of HSP's gapped (non-prelim): 1
length of query: 77
length of database: 289,484,438
effective HSP length: 53
effective length of query: 24
effective length of database: 240,595,860
effective search space: 5774300640
effective search space used: 5774300640
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 84 (37.0 bits)
Query= orf76 [14249-14308]
(58 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570380.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 112 1e-024
>ref|NP_570380.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73318.1| (AF338467) unknown [Cyanophage P60]
Length = 58
Score = 112 bits (279), Expect = 1e-024
Identities = 58/58 (100%), Positives = 58/58 (100%)
Query: 1 MIEILGIKLGYEAVGFIVAFVASEVIGASKLKENSIAQLVKSLIDSLKPSRKEDEEGC 58
MIEILGIKLGYEAVGFIVAFVASEVIGASKLKENSIAQLVKSLIDSLKPSRKEDEEGC
Sbjct: 1 MIEILGIKLGYEAVGFIVAFVASEVIGASKLKENSIAQLVKSLIDSLKPSRKEDEEGC 58
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.136 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,948,326
Number of Sequences: 922426
Number of extensions: 651719
Number of successful extensions: 1739
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1738
Number of HSP's gapped (non-prelim): 1
length of query: 58
length of database: 289,484,438
effective HSP length: 34
effective length of query: 24
effective length of database: 258,121,954
effective search space: 6194926896
effective search space used: 6194926896
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 84 (37.0 bits)
Query= orf77 [14305-14393]
(87 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570381.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 175 7e-044
>ref|NP_570381.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73319.1| (AF338467) unknown [Cyanophage P60]
Length = 87
Score = 175 bits (444), Expect = 7e-044
Identities = 87/87 (100%), Positives = 87/87 (100%)
Query: 1 MPEYLVALLLSAIAGGYTLLHRRIDTTFEKINRLELKVSEQYVSKADVAGQFMRLWDTLN 60
MPEYLVALLLSAIAGGYTLLHRRIDTTFEKINRLELKVSEQYVSKADVAGQFMRLWDTLN
Sbjct: 1 MPEYLVALLLSAIAGGYTLLHRRIDTTFEKINRLELKVSEQYVSKADVAGQFMRLWDTLN 60
Query: 61 RMEEKLDAHVSENKVEIQRIKDKYYHD 87
RMEEKLDAHVSENKVEIQRIKDKYYHD
Sbjct: 61 RMEEKLDAHVSENKVEIQRIKDKYYHD 87
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.320 0.136 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 43,251,258
Number of Sequences: 922426
Number of extensions: 1263367
Number of successful extensions: 5024
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 5023
Number of HSP's gapped (non-prelim): 1
length of query: 87
length of database: 289,484,438
effective HSP length: 63
effective length of query: 24
effective length of database: 231,371,600
effective search space: 5552918400
effective search space used: 5552918400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 84 (37.0 bits)
Query= orf78 [14480-14629]
(148 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570383.1| (NC_003390) putative rhamnosyl transferase... 303 3e-082
ref|NP_046825.1| (NC_001900) gp10 [Mycobacteriophage D29] >... 45 3e-004
>ref|NP_570383.1| (NC_003390) putative rhamnosyl transferase [Cyanophage P60]
gb|AAL73321.1| (AF338467) putative rhamnosyl transferase [Cyanophage P60]
Length = 148
Score = 303 bits (776), Expect = 3e-082
Identities = 148/148 (100%), Positives = 148/148 (100%)
Query: 1 MALRDAAKYYKELPHQQAAWDELEARLPAHVVDEFLQAYRSAPEAPQAPVGGLISHQTLE 60
MALRDAAKYYKELPHQQAAWDELEARLPAHVVDEFLQAYRSAPEAPQAPVGGLISHQTLE
Sbjct: 1 MALRDAAKYYKELPHQQAAWDELEARLPAHVVDEFLQAYRSAPEAPQAPVGGLISHQTLE 60
Query: 61 DLTGYRKELFTQLEVDDFNRLLRETGFDKDLDATRMLVANILHETANLKYMKEIASGWAY 120
DLTGYRKELFTQLEVDDFNRLLRETGFDKDLDATRMLVANILHETANLKYMKEIASGWAY
Sbjct: 61 DLTGYRKELFTQLEVDDFNRLLRETGFDKDLDATRMLVANILHETANLKYMKEIASGWAY 120
Query: 121 EGRSDLGNVHPGDGPRYKGAGVLQLTGR 148
EGRSDLGNVHPGDGPRYKGAGVLQLTGR
Sbjct: 121 EGRSDLGNVHPGDGPRYKGAGVLQLTGR 148
>ref|NP_046825.1| (NC_001900) gp10 [Mycobacteriophage D29]
sp|O64203|VG10_BPMD2 GENE 10 PROTEIN (GP10)
pir||G72800 gp10 protein - Mycobacterium phage D29
gb|AAC18450.1| (AF022214) gp10 [Mycobacteriophage D29]
Length = 493
Score = 44.7 bits (104), Expect = 3e-004
Identities = 25/55 (45%), Positives = 33/55 (59%), Gaps = 2/55 (3%)
Query: 96 MLVANILHETANLKYMKEIASGWAYEGRSDLGNVH--PGDGPRYKGAGVLQLTGR 148
M +A I HE+ + K E ASG AY+ R+DLGN GDG YKG + +TG+
Sbjct: 220 MWLAQIGHESDDFKATAEYASGDAYDTRTDLGNTPEVDGDGRLYKGRSWIMITGK 274
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.317 0.136 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 89,444,213
Number of Sequences: 922426
Number of extensions: 3610870
Number of successful extensions: 8629
Number of sequences better than 5.0e-02: 2
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 8627
Number of HSP's gapped (non-prelim): 2
length of query: 148
length of database: 289,484,438
effective HSP length: 109
effective length of query: 39
effective length of database: 188,940,004
effective search space: 7368660156
effective search space used: 7368660156
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 85 (37.4 bits)
Query= orf79 [14626-14726]
(99 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570384.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 211 1e-054
>ref|NP_570384.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73322.1| (AF338467) unknown [Cyanophage P60]
Length = 99
Score = 211 bits (537), Expect = 1e-054
Identities = 99/99 (100%), Positives = 99/99 (100%)
Query: 1 MISTHKRGASAELLACAALVDAGFEVFRNVTPDGPIDIVVWDGETFYPIDVKRASHYVNK 60
MISTHKRGASAELLACAALVDAGFEVFRNVTPDGPIDIVVWDGETFYPIDVKRASHYVNK
Sbjct: 1 MISTHKRGASAELLACAALVDAGFEVFRNVTPDGPIDIVVWDGETFYPIDVKRASHYVNK 60
Query: 61 QGKATLKLPAKNNEHALILCRTDKDEWVWINDAPEHLWL 99
QGKATLKLPAKNNEHALILCRTDKDEWVWINDAPEHLWL
Sbjct: 61 QGKATLKLPAKNNEHALILCRTDKDEWVWINDAPEHLWL 99
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.320 0.136 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 64,751,761
Number of Sequences: 922426
Number of extensions: 2405346
Number of successful extensions: 4099
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 4098
Number of HSP's gapped (non-prelim): 1
length of query: 99
length of database: 289,484,438
effective HSP length: 75
effective length of query: 24
effective length of database: 220,302,488
effective search space: 5287259712
effective search space used: 5287259712
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 84 (37.0 bits)
Query= orf80 [14720-14806]
(85 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570385.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 170 2e-042
>ref|NP_570385.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73323.1| (AF338467) unknown [Cyanophage P60]
Length = 96
Score = 170 bits (431), Expect = 2e-042
Identities = 85/85 (100%), Positives = 85/85 (100%)
Query: 1 MDETLSAEWLIAQEVAGAGFVNMLGFDESNSVEGELIDSVTGVPNPTDGYFSMQHNQVPA 60
MDETLSAEWLIAQEVAGAGFVNMLGFDESNSVEGELIDSVTGVPNPTDGYFSMQHNQVPA
Sbjct: 12 MDETLSAEWLIAQEVAGAGFVNMLGFDESNSVEGELIDSVTGVPNPTDGYFSMQHNQVPA 71
Query: 61 LLHVALKTALDRIAELERRLNDLNA 85
LLHVALKTALDRIAELERRLNDLNA
Sbjct: 72 LLHVALKTALDRIAELERRLNDLNA 96
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.133 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 47,194,906
Number of Sequences: 922426
Number of extensions: 1672194
Number of successful extensions: 2970
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2969
Number of HSP's gapped (non-prelim): 1
length of query: 85
length of database: 289,484,438
effective HSP length: 61
effective length of query: 24
effective length of database: 233,216,452
effective search space: 5597194848
effective search space used: 5597194848
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 84 (37.0 bits)
Query= orf81 [14833-14894]
(60 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.319 0.135 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,063,322
Number of Sequences: 922426
Number of extensions: 896345
Number of successful extensions: 1492
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1492
Number of HSP's gapped (non-prelim): 0
length of query: 60
length of database: 289,484,438
effective HSP length: 36
effective length of query: 24
effective length of database: 256,277,102
effective search space: 6150650448
effective search space used: 6150650448
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 84 (37.0 bits)
Query= orf82 [14951-15078]
(126 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570387.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 253 2e-067
ref|NP_064745.1| (NC_002519) gp7 [Roseophage SIO1] >gi|9944... 97 2e-020
dbj|BAB83467.1| (AB063108) Vp260 like protein [Chlorella vi... 39 0.012
ref|NP_064744.1| (NC_002519) gp6 [Roseophage SIO1] >gi|9944... 38 0.016
ref|NP_435262.1| (NC_003037) possible protease [Sinorhizobi... 37 0.027
ref|NP_495725.1| (NM_063324) hedgehog-like protein [Caenorh... 37 0.046
>ref|NP_570387.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73325.1| (AF338467) unknown [Cyanophage P60]
Length = 126
Score = 253 bits (646), Expect = 2e-067
Identities = 126/126 (100%), Positives = 126/126 (100%)
Query: 1 MRVAPVANLNGGAAVTGNITVTGTVDGRDVSGDGTKLDGMEANATGDQTASEILTLLLTV 60
MRVAPVANLNGGAAVTGNITVTGTVDGRDVSGDGTKLDGMEANATGDQTASEILTLLLTV
Sbjct: 1 MRVAPVANLNGGAAVTGNITVTGTVDGRDVSGDGTKLDGMEANATGDQTASEILTLLLTV 60
Query: 61 DGTGSGLDADKLDGKNGSHYLNYNNATNKPDIRGNLSDLNDDINVAVQQILSAHSTTMWD 120
DGTGSGLDADKLDGKNGSHYLNYNNATNKPDIRGNLSDLNDDINVAVQQILSAHSTTMWD
Sbjct: 61 DGTGSGLDADKLDGKNGSHYLNYNNATNKPDIRGNLSDLNDDINVAVQQILSAHSTTMWD 120
Query: 121 TSQAFQ 126
TSQAFQ
Sbjct: 121 TSQAFQ 126
>ref|NP_064745.1| (NC_002519) gp7 [Roseophage SIO1]
gb|AAG02590.1|AF189021_8 (AF189021) Roseophage SIO1 complete genome
Length = 540
Score = 97.4 bits (241), Expect = 2e-020
Identities = 50/80 (62%), Positives = 62/80 (77%), Gaps = 1/80 (1%)
Query: 17 GNITVTGTVDGRDVSGDGTKLDGMEANATGDQTASEILTLLLTVDGTGSGLDADKLDGKN 76
G++TVTGTVDGR+V+ DG+KLDG+EA AT DQTASEILT + TVDG+GSGLDAD LDG +
Sbjct: 419 GSVTVTGTVDGRNVAADGSKLDGIEAGATADQTASEILTSIKTVDGSGSGLDADLLDGIH 478
Query: 77 GSHYLNYNNA-TNKPDIRGN 95
S +L N T D+ G+
Sbjct: 479 ASSFLQGNQTITLSGDVSGS 498
>dbj|BAB83467.1| (AB063108) Vp260 like protein [Chlorella virus]
Length = 1166
Score = 38.5 bits (88), Expect = 0.012
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 5/64 (7%)
Query: 4 APVANLNGGAAVTGNITVTGTVDGRDVSGDGTKLDG-----MEANATGDQTASEILTLLL 58
A + +NG +VTG + V G V ++SG+G+ L G + + TG+ TA+ +T L
Sbjct: 222 ARILRVNGNTSVTGQVNVVGNVSASNLSGNGSFLTGVFTGNLSRDITGNVTAAGNITAGL 281
Query: 59 TVDG 62
V G
Sbjct: 282 FVGG 285
>ref|NP_064744.1| (NC_002519) gp6 [Roseophage SIO1]
gb|AAG02589.1|AF189021_7 (AF189021) Roseophage SIO1 complete genome
Length = 249
Score = 38.1 bits (87), Expect = 0.016
Identities = 23/59 (38%), Positives = 32/59 (53%), Gaps = 5/59 (8%)
Query: 61 DGTGSGLDADKLDGKNGSHYLNYNNATNKPDIRGNLSDLNDDIN---VAVQQILSAHST 116
DG+GSGLDAD LDG+ GS+Y +N SD++ +N Q+LS + T
Sbjct: 98 DGSGSGLDADLLDGQQGSYYYPASNPNGYTAYTN--SDVDTHLNTGTATTDQVLSWNGT 154
>ref|NP_435262.1| (NC_003037) possible protease [Sinorhizobium meliloti]
gb|AAK64674.1| (AE007196) possible protease [Sinorhizobium meliloti]
Length = 551
Score = 37.4 bits (85), Expect = 0.027
Identities = 27/82 (32%), Positives = 35/82 (41%), Gaps = 18/82 (21%)
Query: 6 VANLNGGAAVTGNITVTGTVDGRDVSGDGTKLDGMEANATGDQTASEILTLLLTVDGTGS 65
+ N GGA GN +TG + G+G G + GD D
Sbjct: 312 IENAKGGA---GNDAITGNAAANALWGNG----GNDRLIGGDGN-----------DNLAG 353
Query: 66 GLDADKLDGKNGSHYLNYNNAT 87
G AD+LDG NG+ NY+NAT
Sbjct: 354 GAGADRLDGGNGTDLANYSNAT 375
>ref|NP_495725.1| (NM_063324) hedgehog-like protein [Caenorhabditis elegans]
pir||T23754 hypothetical protein T05C12.10 - Caenorhabditis elegans
emb|CAA90265.1| (Z49968) similar to drosophila hedgehog protein, contains
similarity to Pfam domain: PF01079 (Hint module),
Score=107.4, E-value=8.8e-29, N=1~cDNA EST EMBL:M89431
comes from this gene~cDNA EST EMBL:M89067 comes from
this gene~cDNA EST yk125e5.5 comes f>
emb|CAA91313.1| (Z66500) similar to drosophila hedgehog protein, contains
similarity to Pfam domain: PF01079 (Hint module),
Score=107.4, E-value=8.8e-29, N=1~cDNA EST EMBL:M89431
comes from this gene~cDNA EST EMBL:M89067 comes from
this gene~cDNA EST yk125e5.5 comes f>
Length = 1207
Score = 36.6 bits (83), Expect = 0.046
Identities = 32/111 (28%), Positives = 41/111 (36%), Gaps = 27/111 (24%)
Query: 7 ANLNGGAAVTGNITVTGTVDGRD-------------VSGDGTKLDGMEANATGDQTASEI 53
A GA GNI +T DG+ V+G G G+ TG QT +E
Sbjct: 329 AGAGAGAGTNGNINITVHTDGKSGGNAVAVANANVTVNGAG----GVSTTGTGAQTGNE- 383
Query: 54 LTLLLTVDGTGSGLDADKLDGKNGSH--YLNYNNATNKPDIRGNLSDLNDD 102
G G DK GK G H + N NK + +G ND+
Sbjct: 384 -------SGLGGSAGTDKAGGKKGGHGDSGDSGNNKNKDNGKGKGKGKNDE 427
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.309 0.129 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 75,288,329
Number of Sequences: 922426
Number of extensions: 3234679
Number of successful extensions: 7290
Number of sequences better than 5.0e-02: 6
Number of HSP's better than 0.1 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 7275
Number of HSP's gapped (non-prelim): 16
length of query: 126
length of database: 289,484,438
effective HSP length: 102
effective length of query: 24
effective length of database: 195,396,986
effective search space: 4689527664
effective search space used: 4689527664
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 83 (36.6 bits)
Query= orf83 [15070-15226]
(155 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570388.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 96 1e-019
>ref|NP_570388.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73326.1| (AF338467) unknown [Cyanophage P60]
Length = 58
Score = 95.5 bits (236), Expect = 1e-019
Identities = 45/58 (77%), Positives = 45/58 (77%)
Query: 98 MNSGASLELDPXXXXXXXXXXXXXKMVKQNNGVKVLNGTPWMKLWRITPSEDACGPSG 155
MNSGASLELDP KMVKQNNGVKVLNGTPWMKLWRITPSEDACGPSG
Sbjct: 1 MNSGASLELDPSGSGGFFFGGAGGKMVKQNNGVKVLNGTPWMKLWRITPSEDACGPSG 58
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.312 0.133 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 88,842,027
Number of Sequences: 922426
Number of extensions: 3320014
Number of successful extensions: 4673
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 4672
Number of HSP's gapped (non-prelim): 1
length of query: 155
length of database: 289,484,438
effective HSP length: 110
effective length of query: 45
effective length of database: 188,017,578
effective search space: 8460791010
effective search space used: 8460791010
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 85 (37.4 bits)
Query= orf84 [15291-15381]
(89 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.320 0.132 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,780,216
Number of Sequences: 922426
Number of extensions: 29130
Number of successful extensions: 2
Number of sequences better than 5.0e-02: 0
Number of HSP's better than 0.1 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2
Number of HSP's gapped (non-prelim): 0
length of query: 89
length of database: 289,484,438
effective HSP length: 65
effective length of query: 24
effective length of database: 229,526,748
effective search space: 5508641952
effective search space used: 5508641952
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 84 (37.0 bits)
Query= orf85 [15404-15509]
(104 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570390.1| (NC_003390) unknown [Cyanophage P60] >gi|1... 211 9e-055
gb|AAC51758.1| (AF015256) p38 mitogen-activated protein kin... 37 0.030
>ref|NP_570390.1| (NC_003390) unknown [Cyanophage P60]
gb|AAL73328.1| (AF338467) unknown [Cyanophage P60]
Length = 104
Score = 211 bits (538), Expect = 9e-055
Identities = 104/104 (100%), Positives = 104/104 (100%)
Query: 1 MTVITEVYYNGDGTTTNFSFPFDYIDQTHVKVGILNDTTGVYDEKEQDDATYGWSLANSS 60
MTVITEVYYNGDGTTTNFSFPFDYIDQTHVKVGILNDTTGVYDEKEQDDATYGWSLANSS
Sbjct: 1 MTVITEVYYNGDGTTTNFSFPFDYIDQTHVKVGILNDTTGVYDEKEQDDATYGWSLANSS 60
Query: 61 TVQFNSAPPAPTNAEIFSSRSSGKLILTQHMLHSAQVLLLRLSI 104
TVQFNSAPPAPTNAEIFSSRSSGKLILTQHMLHSAQVLLLRLSI
Sbjct: 61 TVQFNSAPPAPTNAEIFSSRSSGKLILTQHMLHSAQVLLLRLSI 104
>gb|AAC51758.1| (AF015256) p38 mitogen-activated protein kinase [Homo sapiens]
Length = 365
Score = 37.4 bits (85), Expect = 0.030
Identities = 23/93 (24%), Positives = 36/93 (37%), Gaps = 13/93 (13%)
Query: 8 YYNGDGTTTNFSFPFDYIDQTHVKVGILNDTTGVYDEKEQDDATYGWSLANSSTVQFNSA 67
+Y D T + P Y+ THV G D++ +
Sbjct: 9 FYKQDVNKTAWELPKTYVSPTHVGSGAYGSVCSAIDKRSGEKVAI-------------KK 55
Query: 68 PPAPTNAEIFSSRSSGKLILTQHMLHSAQVLLL 100
P P +EIF+ R+ +L+L +HM H + LL
Sbjct: 56 PSRPFQSEIFAKRAYRELLLLKHMQHENVIGLL 88
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.315 0.130 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 60,308,138
Number of Sequences: 922426
Number of extensions: 2259709
Number of successful extensions: 5527
Number of sequences better than 5.0e-02: 2
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 5526
Number of HSP's gapped (non-prelim): 2
length of query: 104
length of database: 289,484,438
effective HSP length: 80
effective length of query: 24
effective length of database: 215,690,358
effective search space: 5176568592
effective search space used: 5176568592
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 84 (37.0 bits)
Query= orf86 [15510-15955]
(444 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
922,426 sequences; 289,484,438 total letters
Searching done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_570317.1| (NC_003390) chemoreceptor-like protein [Cy... 94 3e-018
>ref|NP_570317.1| (NC_003390) chemoreceptor-like protein [Cyanophage P60]
gb|AAL73255.1| (AF338467) chemoreceptor-like protein [Cyanophage P60]
Length = 554
Score = 94.0 bits (232), Expect = 3e-018
Identities = 45/51 (88%), Positives = 46/51 (89%)
Query: 2 RYFTESGEILDPRLQEIADESTFRHKLEGKAAAFSSFVNSNPWIRPFFPFV 52
RYFTESGEILDPRLQEIADESTFRHKLEGKAAAFSSFVNSNPWI F+
Sbjct: 485 RYFTESGEILDPRLQEIADESTFRHKLEGKAAAFSSFVNSNPWIPAIISFM 535
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: May 10, 2002 4:30 AM
Number of letters in database: 289,484,438
Number of sequences in database: 922,426
Lambda K H
0.316 0.132 4.65e-269
Gapped
Lambda K H
0.267 0.0410 4.65e-269
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 248,650,637
Number of Sequences: 922426
Number of extensions: 10341284
Number of successful extensions: 28109
Number of sequences better than 5.0e-02: 1
Number of HSP's better than 0.1 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 28108
Number of HSP's gapped (non-prelim): 1
length of query: 444
length of database: 289,484,438
effective HSP length: 123
effective length of query: 321
effective length of database: 176,026,040
effective search space: 56504358840
effective search space used: 56504358840
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 92 (40.0 bits)