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|15645923|ref|NP_208102.1| ribosomal protein S17
(rps17) [Helicobacter pylori 26695]
(86 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|1EG0|G Chain G, Fitting Of Components With Known Struct... 69 1e-13
pdb|1RIP| Ribosomal Protein S17 (Nmr, 6 Structures) 69 1e-13
pdb|1I94|Q Chain Q, Crystal Structures Of The Small Ribosom... 69 1e-13
pdb|1QD7|I Chain I, Partial Model For 30s Ribosomal Subunit 69 1e-13
pdb|1FJG|Q Chain Q, Structure Of The Thermus Thermophilus 3... 67 3e-13
pdb|1J5E|Q Chain Q, Structure Of The Thermus Thermophilus 3... 67 3e-13
pdb|1K4R|A Chain A, Structure Of Dengue Virus >gi|20150657|... 24 2.5
pdb|1JG2|A Chain A, Crystal Structure Of L-Isoaspartyl (D-A... 24 2.5
pdb|1HM6|A Chain A, X-Ray Structure Of Full-Length Annexin ... 23 4.3
pdb|1AXD|A Chain A, Structure Of Glutathione S-Transferase-... 23 4.3
pdb|1GFF|1 Chain 1, Mol_id: 1; Molecule: Bacteriophage G4 C... 23 4.3
pdb|1BYE|A Chain A, Glutathione S-Transferase I From Mais I... 23 4.3
pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dn... 23 5.6
pdb|2DPM|A Chain A, Dpnm Dna Adenine Methyltransferase From... 23 7.3
pdb|1HO8|A Chain A, Crystal Structure Of The Regulatory Sub... 22 9.5
pdb|1BM8| Dna-Binding Domain Of Mbp1 22 9.5
pdb|1MB1| Mbp1 From Saccharomyces Cerevisiae 22 9.5
pdb|1AIN| Annexin I 22 9.5
pdb|1SBP| Sulfate-Binding Protein 22 9.5
>pdb|1EG0|G Chain G, Fitting Of Components With Known Structure Into An 11.5
A Cryo-Em Map Of The E.Coli 70s Ribosome
Length = 93
Score = 68.6 bits (166), Expect = 1e-13
Identities = 35/75 (46%), Positives = 47/75 (62%)
Query: 8 KRLVQGKVISKFAEKSAVILVERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIEC 67
+++ G+V+S +K+ +LVE H Y K VK KKY HDE+N+ KVGD V +E
Sbjct: 6 RKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMET 65
Query: 68 RPLSKTKSFTLKEIL 82
RPLS TK F L EI+
Sbjct: 66 RPLSATKRFRLVEIV 80
>pdb|1RIP| Ribosomal Protein S17 (Nmr, 6 Structures)
Length = 81
Score = 68.6 bits (166), Expect = 1e-13
Identities = 35/75 (46%), Positives = 47/75 (62%)
Query: 8 KRLVQGKVISKFAEKSAVILVERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIEC 67
+++ G+V+S +K+ +LVE H Y K VK KKY HDE+N+ KVGD V +E
Sbjct: 2 RKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMET 61
Query: 68 RPLSKTKSFTLKEIL 82
RPLS TK F L EI+
Sbjct: 62 RPLSATKRFRLVEIV 76
>pdb|1I94|Q Chain Q, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I96|Q Chain Q, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|Q Chain Q, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1I95|Q Chain Q, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
Length = 104
Score = 68.6 bits (166), Expect = 1e-13
Identities = 32/78 (41%), Positives = 48/78 (61%)
Query: 8 KRLVQGKVISKFAEKSAVILVERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIEC 67
K+++ G V+S +K+ +LVER+ H Y K++K+ KKY HD + KVGD V IE
Sbjct: 2 KKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEERYKVGDVVEIIEA 61
Query: 68 RPLSKTKSFTLKEILVVG 85
RP+SK K F + ++ G
Sbjct: 62 RPISKRKRFRVLRLVEEG 79
>pdb|1QD7|I Chain I, Partial Model For 30s Ribosomal Subunit
Length = 89
Score = 68.6 bits (166), Expect = 1e-13
Identities = 35/75 (46%), Positives = 47/75 (62%)
Query: 8 KRLVQGKVISKFAEKSAVILVERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIEC 67
+++ G+V+S +K+ +LVE H Y K VK KKY HDE+N+ KVGD V +E
Sbjct: 2 RKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMET 61
Query: 68 RPLSKTKSFTLKEIL 82
RPLS TK F L EI+
Sbjct: 62 RPLSATKRFRLVEIV 76
>pdb|1FJG|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin And Paromomycin
pdb|1IBL|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1HR0|Q Chain Q, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNZ|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1IBM|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1IBK|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1HNW|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1JGQ|T Chain T, The Path Of Messenger Rna Through The Ribosome. This
File, 1jgq, Contains The 30s Ribosome Subunit, Three
Trna, And Mrna Molecules. 50s Ribosome Subunit Is In
The File 1giy
pdb|1GIX|T Chain T, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1JGO|T Chain T, The Path Of Messenger Rna Through The Ribosome. This
File, 1jgo, Contains The 30s Ribosome Subunit, Three
Trna, And Mrna Molecules. 50s Ribosome Subunit Is In
The File 1giy
pdb|1JGP|T Chain T, The Path Of Messenger Rna Through The Ribosome. This
File, 1jgp, Contains The 30s Ribosome Subunit, Three
Trna, And Mrna Molecules. 50s Ribosome Subunit Is In
The File 1giy
Length = 105
Score = 67.0 bits (162), Expect = 3e-13
Identities = 31/78 (39%), Positives = 48/78 (60%)
Query: 8 KRLVQGKVISKFAEKSAVILVERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIEC 67
K+++ G V+S +K+ +LVER+ H Y K++K+ KKY HD + K+GD V IE
Sbjct: 3 KKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIES 62
Query: 68 RPLSKTKSFTLKEILVVG 85
RP+SK K F + ++ G
Sbjct: 63 RPISKRKRFRVLRLVESG 80
>pdb|1J5E|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
Length = 104
Score = 67.0 bits (162), Expect = 3e-13
Identities = 31/78 (39%), Positives = 48/78 (60%)
Query: 8 KRLVQGKVISKFAEKSAVILVERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIEC 67
K+++ G V+S +K+ +LVER+ H Y K++K+ KKY HD + K+GD V IE
Sbjct: 2 KKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIES 61
Query: 68 RPLSKTKSFTLKEILVVG 85
RP+SK K F + ++ G
Sbjct: 62 RPISKRKRFRVLRLVESG 79
>pdb|1K4R|A Chain A, Structure Of Dengue Virus
pdb|1K4R|B Chain B, Structure Of Dengue Virus
pdb|1K4R|C Chain C, Structure Of Dengue Virus
pdb|1SVB| Envelope Glycoprotein From Tick-Borne Encephalitis Virus
Length = 395
Score = 24.3 bits (51), Expect = 2.5
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 6/42 (14%)
Query: 47 YTIHDENNQVKVGDFVSAIECRPLSKTKSFTL---KEILVVG 85
YT+ E + GD+V+A E KT SFT+ K IL +G
Sbjct: 139 YTVKVEPH---TGDYVAANETHSGRKTASFTISSEKTILTMG 177
>pdb|1JG2|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With Adenosine
pdb|1JG4|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With S-Adenosylmethionine
pdb|1JG3|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With Adenosine & Vyp(Isp)ha Substrate
pdb|1JG3|B Chain B, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With Adenosine & Vyp(Isp)ha Substrate
pdb|1JG1|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With S-Adenosyl-L-Homocysteine
Length = 235
Score = 24.3 bits (51), Expect = 2.5
Identities = 14/38 (36%), Positives = 20/38 (51%), Gaps = 1/38 (2%)
Query: 28 VERKVV-HEKYRKIVKKFKKYTIHDENNQVKVGDFVSA 64
VER + + +Y + K+KKY DE + G VSA
Sbjct: 39 VERAFLKYPRYLSVEDKYKKYAHIDEPLPIPAGQTVSA 76
>pdb|1HM6|A Chain A, X-Ray Structure Of Full-Length Annexin 1
pdb|1HM6|B Chain B, X-Ray Structure Of Full-Length Annexin 1
Length = 346
Score = 23.5 bits (49), Expect = 4.3
Identities = 11/28 (39%), Positives = 16/28 (56%), Gaps = 2/28 (7%)
Query: 26 ILVERKVVHEKYRKIVKKFKKYTIHDEN 53
IL R H R++ +K+ KY+ HD N
Sbjct: 224 ILTTRSYPH--LRRVFQKYSKYSKHDMN 249
>pdb|1AXD|A Chain A, Structure Of Glutathione S-Transferase-I Bound With The
Ligand Lactoylglutathione
pdb|1AXD|B Chain B, Structure Of Glutathione S-Transferase-I Bound With The
Ligand Lactoylglutathione
Length = 209
Score = 23.5 bits (49), Expect = 4.3
Identities = 13/45 (28%), Positives = 21/45 (45%)
Query: 29 ERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIECRPLSKT 73
++KVV E K+ K + Y + GDF+S + +S T
Sbjct: 127 DQKVVDENLEKLKKVLEVYEARLTKCKYLAGDFLSLADLNHVSVT 171
>pdb|1GFF|1 Chain 1, Mol_id: 1; Molecule: Bacteriophage G4 Capsid Proteins Gpf,
Gpg, Gpj; Chain: 1, 2, 3; Mutation: Am(E)w4
Length = 426
Score = 23.5 bits (49), Expect = 4.3
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 29 ERKVVHEKYRKIVKKFKKYTIHDENNQ 55
ER +YR I+K+F +T +D +N+
Sbjct: 207 ERDYFMTRYRDIMKEFGGHTSYDGDNR 233
>pdb|1BYE|A Chain A, Glutathione S-Transferase I From Mais In Complex With
Atrazine Glutathione Conjugate
pdb|1BYE|B Chain B, Glutathione S-Transferase I From Mais In Complex With
Atrazine Glutathione Conjugate
pdb|1BYE|C Chain C, Glutathione S-Transferase I From Mais In Complex With
Atrazine Glutathione Conjugate
pdb|1BYE|D Chain D, Glutathione S-Transferase I From Mais In Complex With
Atrazine Glutathione Conjugate
Length = 213
Score = 23.5 bits (49), Expect = 4.3
Identities = 13/45 (28%), Positives = 21/45 (45%)
Query: 29 ERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIECRPLSKT 73
++KVV E K+ K + Y + GDF+S + +S T
Sbjct: 127 DQKVVDENLEKLKKVLEVYEARLTKCKYLAGDFLSLADLNHVSVT 171
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 23.1 bits (48), Expect = 5.6
Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 14/64 (21%)
Query: 1 MNTKEPHKRLVQGKVIS--------------KFAEKSAVILVERKVVHEKYRKIVKKFKK 46
M +++P RL+QG V S + ++A ++ + + YR+ V+ F K
Sbjct: 384 MISEKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSILAIQHYRRTVESFSK 443
Query: 47 YTIH 50
+ IH
Sbjct: 444 FNIH 447
>pdb|2DPM|A Chain A, Dpnm Dna Adenine Methyltransferase From Streptoccocus
Pneumoniae Complexed With S-Adenosylmethionine
Length = 284
Score = 22.7 bits (47), Expect = 7.3
Identities = 17/45 (37%), Positives = 24/45 (52%), Gaps = 15/45 (33%)
Query: 48 TIHDENNQ--VKVGDFVSAI-ECR------------PLSKTKSFT 77
+++ NNQ +KVGDF AI + R PLS+T +FT
Sbjct: 163 SVYINNNQLEIKVGDFEKAIVDVRTGDFVYFDPPYIPLSETSAFT 207
>pdb|1HO8|A Chain A, Crystal Structure Of The Regulatory Subunit H Of The
V-Type Atpase Of Saccharomyces Cerevisiae
Length = 480
Score = 22.3 bits (46), Expect = 9.5
Identities = 12/64 (18%), Positives = 31/64 (47%)
Query: 7 HKRLVQGKVISKFAEKSAVILVERKVVHEKYRKIVKKFKKYTIHDENNQVKVGDFVSAIE 66
HK++++ ++ A + L ERK E+ R+ + K+ ++ ++V+ ++
Sbjct: 307 HKKVIKQLLLLGNALPTVQSLSERKYSDEELRQDISNLKEILENEYQELTSFDEYVAELD 366
Query: 67 CRPL 70
+ L
Sbjct: 367 SKLL 370
>pdb|1BM8| Dna-Binding Domain Of Mbp1
Length = 99
Score = 22.3 bits (46), Expect = 9.5
Identities = 9/31 (29%), Positives = 18/31 (58%)
Query: 17 SKFAEKSAVILVERKVVHEKYRKIVKKFKKY 47
+ FA+ ++E++V+ E + K+ F KY
Sbjct: 40 ANFAKAKRTRILEKEVLKETHEKVQGGFGKY 70
>pdb|1MB1| Mbp1 From Saccharomyces Cerevisiae
Length = 130
Score = 22.3 bits (46), Expect = 9.5
Identities = 9/31 (29%), Positives = 18/31 (58%)
Query: 17 SKFAEKSAVILVERKVVHEKYRKIVKKFKKY 47
+ FA+ ++E++V+ E + K+ F KY
Sbjct: 43 ANFAKAKRTRILEKEVLKETHEKVQGGFGKY 73
>pdb|1AIN| Annexin I
Length = 314
Score = 22.3 bits (46), Expect = 9.5
Identities = 7/20 (35%), Positives = 14/20 (70%)
Query: 34 HEKYRKIVKKFKKYTIHDEN 53
+ + R++ +K+ KY+ HD N
Sbjct: 198 YPQLRRVFQKYTKYSKHDMN 217
>pdb|1SBP| Sulfate-Binding Protein
Length = 310
Score = 22.3 bits (46), Expect = 9.5
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 50 HDENNQVKVGDFVSAI 65
H+ N+Q K DFV A+
Sbjct: 147 HNNNDQAKAEDFVKAL 162
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
0.318 0.134 0.363
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 428,939
Number of Sequences: 13198
Number of extensions: 13449
Number of successful extensions: 54
Number of sequences better than 10.0: 19
Number of HSP's better than 10.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 38
Number of HSP's gapped (non-prelim): 19
length of query: 86
length of database: 2,899,336
effective HSP length: 62
effective length of query: 24
effective length of database: 2,081,060
effective search space: 49945440
effective search space used: 49945440
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: 46 (22.3 bits)