BLASTP 2.2.1 [Apr-13-2001]
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= gi|15645859|ref|NP_208037.1| single-strand DNA-binding
protein (ssb) [Helicobacter pylori 26695]
(179 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1QVC|A Chain A, Crystal Structure Analysis Of Single St... 80 2e-16
pdb|1EYG|A Chain A, Crystal Structure Of Chymotryptic Fragm... 80 2e-16
pdb|1KAW|A Chain A, Structure Of Single Stranded Dna Bindin... 80 2e-16
pdb|3ULL|A Chain A, Human Mitochondrial Single-Stranded Dna... 47 1e-06
pdb|1QFN|A Chain A, Glutaredoxin-1-Ribonucleotide Reductase... 25 5.2
pdb|1EGO| Glutaredoxin (Oxidized) (Nmr, 20 Structures) >g... 25 5.2
pdb|1GWF|A Chain A, Compound Ii Structure Of Micrococcus Ly... 25 5.2
pdb|1GWE|A Chain A, Atomic Resolution Structure Of Micrococ... 25 6.7
pdb|1EF5|A Chain A, Solution Structure Of The Ras-Binding D... 25 6.7
pdb|1JSQ|A Chain A, Structure Of Msba From Escherichia Coli... 25 6.7
pdb|1LL4|A Chain A, Structure Of C. Immitis Chitinase 1 Com... 24 8.8
>pdb|1QVC|A Chain A, Crystal Structure Analysis Of Single Stranded Dna
Binding Protein (Ssb) From E.Coli
pdb|1QVC|B Chain B, Crystal Structure Analysis Of Single Stranded Dna
Binding Protein (Ssb) From E.Coli
pdb|1QVC|C Chain C, Crystal Structure Analysis Of Single Stranded Dna
Binding Protein (Ssb) From E.Coli
pdb|1QVC|D Chain D, Crystal Structure Analysis Of Single Stranded Dna
Binding Protein (Ssb) From E.Coli
Length = 145
Score = 79.7 bits (195), Expect = 2e-16
Identities = 41/89 (46%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Query: 3 NKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFK-KQDGTLGEEVCFIDARLFGRTAE 61
NKVI+VG L ++ E++Y+P+G A A I LATS ++ K G + E+ + LFG+ AE
Sbjct: 6 NKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAE 65
Query: 62 IANQYLSKGSSVLIEGRLTYESWMDQTGK 90
+A++YL KGS V IEG+L W DQ+G+
Sbjct: 66 VASEYLRKGSQVYIEGQLRTRKWTDQSGQ 94
>pdb|1EYG|A Chain A, Crystal Structure Of Chymotryptic Fragment Of E. Coli
Ssb Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|D Chain D, Crystal Structure Of Chymotryptic Fragment Of E. Coli
Ssb Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|C Chain C, Crystal Structure Of Chymotryptic Fragment Of E. Coli
Ssb Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|B Chain B, Crystal Structure Of Chymotryptic Fragment Of E. Coli
Ssb Bound To Two 35-Mer Single Strand Dnas
Length = 116
Score = 79.7 bits (195), Expect = 2e-16
Identities = 41/89 (46%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Query: 3 NKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFK-KQDGTLGEEVCFIDARLFGRTAE 61
NKVI+VG L ++ E++Y+P+G A A I LATS ++ K G + E+ + LFG+ AE
Sbjct: 7 NKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAE 66
Query: 62 IANQYLSKGSSVLIEGRLTYESWMDQTGK 90
+A++YL KGS V IEG+L W DQ+G+
Sbjct: 67 VASEYLRKGSQVYIEGQLRTRKWTDQSGQ 95
>pdb|1KAW|A Chain A, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|B Chain B, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|C Chain C, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|D Chain D, Structure Of Single Stranded Dna Binding Protein (Ssb)
Length = 135
Score = 79.7 bits (195), Expect = 2e-16
Identities = 41/89 (46%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Query: 3 NKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFK-KQDGTLGEEVCFIDARLFGRTAE 61
NKVI+VG L ++ E++Y+P+G A A I LATS ++ K G + E+ + LFG+ AE
Sbjct: 6 NKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAE 65
Query: 62 IANQYLSKGSSVLIEGRLTYESWMDQTGK 90
+A++YL KGS V IEG+L W DQ+G+
Sbjct: 66 VASEYLRKGSQVYIEGQLRTRKWTDQSGQ 94
>pdb|3ULL|A Chain A, Human Mitochondrial Single-Stranded Dna Binding Protein
pdb|3ULL|B Chain B, Human Mitochondrial Single-Stranded Dna Binding Protein
Length = 132
Score = 47.4 bits (111), Expect = 1e-06
Identities = 27/114 (23%), Positives = 59/114 (51%), Gaps = 7/114 (6%)
Query: 3 NKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFKKQD------GTLGEEVCFIDARLF 56
N+V ++GR+ ++ L+ + + LAT+ ++ D G + ++ + +F
Sbjct: 15 NRVHLLGRVGQDPVLRQVEGKNPVTIFSLATNEMWRSGDSEVYQLGDVSQKTTWHRISVF 74
Query: 57 GR-TAEIANQYLSKGSSVLIEGRLTYESWMDQTGKKNSRHTITADSLQFMDKKS 109
++A QY+ KGS + +EG++ Y +MD+ + TI AD++ F+ ++
Sbjct: 75 RPGLRDVAYQYVKKGSRIYLEGKIDYGEYMDKNNVRRQATTIIADNIIFLSDQT 128
>pdb|1QFN|A Chain A, Glutaredoxin-1-Ribonucleotide Reductase B1 Mixed Disulfide
Bond
pdb|1GRX| Structure Of E. Coli Glutaredoxin
Length = 85
Score = 25.0 bits (53), Expect = 5.2
Identities = 13/42 (30%), Positives = 21/42 (49%), Gaps = 3/42 (7%)
Query: 139 QDPFNQAYAQ---NAYAKENLQAQPSKYQNSVPEINIDEEEI 177
+D F Y KE+LQ + K +VP+I +D++ I
Sbjct: 28 RDDFQYQYVDIRAEGITKEDLQQKAGKPVETVPQIFVDQQHI 69
>pdb|1EGO| Glutaredoxin (Oxidized) (Nmr, 20 Structures)
pdb|1EGR| Glutaredoxin (Reduced) (Nmr, 20 Structures)
Length = 85
Score = 25.0 bits (53), Expect = 5.2
Identities = 13/42 (30%), Positives = 21/42 (49%), Gaps = 3/42 (7%)
Query: 139 QDPFNQAYAQ---NAYAKENLQAQPSKYQNSVPEINIDEEEI 177
+D F Y KE+LQ + K +VP+I +D++ I
Sbjct: 28 RDDFQYQYVDIRAEGITKEDLQQKAGKPVETVPQIFVDQQHI 69
>pdb|1GWF|A Chain A, Compound Ii Structure Of Micrococcus Lysodeikticus
Catalase
Length = 503
Score = 25.0 bits (53), Expect = 5.2
Identities = 25/97 (25%), Positives = 41/97 (41%), Gaps = 15/97 (15%)
Query: 6 IMVGRLT--RNVELKYLPSGSAAAT-------IGLATSRRFKKQDGTLGEEVCFIDARLF 56
I VG LT RN E + SAA + IGL+ R LG + DA+L+
Sbjct: 296 IKVGTLTLNRNPENHFAQIESAAFSPSNTVPGIGLSPDRML------LGRAFAYHDAQLY 349
Query: 57 GRTAEIANQYLSKGSSVLIEGRLTYESWMDQTGKKNS 93
A + +++ + + + W D TG +++
Sbjct: 350 RVGAHVNQLPVNRPKNAVHNYAFEGQXWYDHTGDRST 386
>pdb|1GWE|A Chain A, Atomic Resolution Structure Of Micrococcus Lysodeikticus
Catalase
pdb|1GWH|A Chain A, Atomic Resolution Structure Of Micrococcus Lysodeikticus
Catalase Complexed With Nadph
Length = 503
Score = 24.6 bits (52), Expect = 6.7
Identities = 25/97 (25%), Positives = 41/97 (41%), Gaps = 15/97 (15%)
Query: 6 IMVGRLT--RNVELKYLPSGSAAAT-------IGLATSRRFKKQDGTLGEEVCFIDARLF 56
I VG LT RN E + SAA + IGL+ R LG + DA+L+
Sbjct: 296 IKVGTLTLNRNPENHFAQIESAAFSPSNTVPGIGLSPDRML------LGRAFAYHDAQLY 349
Query: 57 GRTAEIANQYLSKGSSVLIEGRLTYESWMDQTGKKNS 93
A + +++ + + + W D TG +++
Sbjct: 350 RVGAHVNQLPVNRPKNAVHNYAFEGQMWYDHTGDRST 386
>pdb|1EF5|A Chain A, Solution Structure Of The Ras-Binding Domain Of Rgl
Length = 103
Score = 24.6 bits (52), Expect = 6.7
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 122 MHENSNNAYPANHNAPSQDPFNQAYAQNAYAKENLQAQPSKYQNSVPEINIDEE 175
+ +N+ N Y + SQD A Q A +K NL++ P++ V I+ D+E
Sbjct: 25 VEDNNGNMYKSIM-LTSQDK-TPAVIQRAMSKHNLESDPAEEYELVQVISEDKE 76
>pdb|1JSQ|A Chain A, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|B Chain B, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|C Chain C, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|D Chain D, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|E Chain E, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|F Chain F, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|G Chain G, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|H Chain H, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
Length = 582
Score = 24.6 bits (52), Expect = 6.7
Identities = 16/54 (29%), Positives = 26/54 (47%), Gaps = 2/54 (3%)
Query: 45 GEEVCFIDARLFGRTAEIANQYLSKGSSVLIEGRLTYESWMDQTGKKNSRHTIT 98
G+ V + RLFG + + K S+ + R+TY+S +Q +S IT
Sbjct: 94 GKVVMTMRRRLFGHMMGMPVSFFDKQSTGTLLSRITYDS--EQVASSSSGALIT 145
>pdb|1LL4|A Chain A, Structure Of C. Immitis Chitinase 1 Complexed With
Allosamidin
pdb|1LL4|B Chain B, Structure Of C. Immitis Chitinase 1 Complexed With
Allosamidin
pdb|1LL4|C Chain C, Structure Of C. Immitis Chitinase 1 Complexed With
Allosamidin
pdb|1LL4|D Chain D, Structure Of C. Immitis Chitinase 1 Complexed With
Allosamidin
pdb|1D2K|A Chain A, C. Immitis Chitinase 1 At 2.2 Angstroms Resolution
Length = 392
Score = 24.3 bits (51), Expect = 8.8
Identities = 11/38 (28%), Positives = 22/38 (56%)
Query: 91 KNSRHTITADSLQFMDKKSDNPQANAMQDSIMHENSNN 128
KN R+ I+ D+++ KK++ N M + E+S++
Sbjct: 311 KNKRYLISYDTVKIAGKKAEYITKNGMGGGMWWESSSD 348
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.312 0.127 0.355
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,011,766
Number of Sequences: 13198
Number of extensions: 39512
Number of successful extensions: 93
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 82
Number of HSP's gapped (non-prelim): 11
length of query: 179
length of database: 2,899,336
effective HSP length: 82
effective length of query: 97
effective length of database: 1,817,100
effective search space: 176258700
effective search space used: 176258700
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: 51 (24.3 bits)