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|15645167|ref|NP_207337.1| cag pathogenicity island
protein (cag20) [Helicobacter pylori 26695]
(370 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|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Comp... 28 1.3
pdb|1PGJ|A Chain A, X-Ray Structure Of 6-Phosphogluconate D... 28 1.7
pdb|1IL6| Human Interleukin-6, Nmr, Minimized Average Str... 26 6.3
pdb|1HHS|A Chain A, Rna Dependent Rna Polymerase From Dsrna... 26 6.3
pdb|1JMC|A Chain A, Single Stranded Dna-Binding Domain Of H... 26 6.3
pdb|1ALU| Human Interleukin-6 26 6.3
pdb|1FGU|A Chain A, Ssdna-Binding Domain Of The Large Subun... 26 6.3
pdb|1GFQ| Ompf Porin (Mutant R82c) 26 8.2
pdb|1HXU|A Chain A, Ompf Porin Mutant Kk 26 8.2
pdb|1HXT|A Chain A, Ompf Porin Mutant Nqaaa 26 8.2
pdb|1GFP| Ompf Porin (Mutant R42c) 26 8.2
pdb|1GFN| Ompf Porin Deletion (Mutant Delta 109-114) 26 8.2
pdb|2OMF| Ompf Porin >gi|999982|pdb|1OPF| The Structure ... 26 8.2
pdb|1GFO| Ompf Porin (Mutant R132p) 26 8.2
pdb|1GFM| Ompf Porin (Mutant D113g) 26 8.2
pdb|1MPF| Matrix Porin (Ompf) Mutant With Gly 119 Replace... 26 8.2
pdb|1HXX|A Chain A, Ompf Porin Mutant Y106f 26 8.2
pdb|1BT9|A Chain A, Ompf Porin Mutant D74a 26 8.2
>pdb|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
pdb|1JCH|C Chain C, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
Length = 551
Score = 28.5 bits (62), Expect = 1.3
Identities = 18/52 (34%), Positives = 26/52 (49%), Gaps = 6/52 (11%)
Query: 10 SSSAGFLSEISSIIS------STSGVAGPFAGIVAGAMSAAIIPIVVGFTNP 55
S + G LS +++ ++ ST G G I AGA+SAAI I+ P
Sbjct: 75 SGTGGNLSAVAAPVAFGFPALSTPGAGGLAVSISAGALSAAIADIMAALKGP 126
>pdb|1PGJ|A Chain A, X-Ray Structure Of 6-Phosphogluconate Dehydrogenase From
The Protozoan Parasite T. Brucei
pdb|1PGJ|B Chain B, X-Ray Structure Of 6-Phosphogluconate Dehydrogenase From
The Protozoan Parasite T. Brucei
Length = 478
Score = 28.1 bits (61), Expect = 1.7
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 333 NKSFLKSHLTYLDYIKNKLKGQKDSYLTERVQTKI 367
+K+FLKS++ + + K + SYLTE V +I
Sbjct: 225 SKNFLKSYMLDISIAAARAKDKDGSYLTEHVMDRI 259
>pdb|1IL6| Human Interleukin-6, Nmr, Minimized Average Structure
pdb|2IL6| Human Interleukin-6, Nmr, 32 Structures
Length = 185
Score = 26.2 bits (56), Expect = 6.3
Identities = 21/99 (21%), Positives = 43/99 (43%), Gaps = 18/99 (18%)
Query: 272 CYAEKVAEILREYYIEFVKNNTNLLQNASQMILNQSGLATSTYDTQAISNISSLYNYNIV 331
C + E +E E NN NL + A + QSG +T + I+ L + +
Sbjct: 45 CNKSNMCESSKEALAE---NNLNLPKMAEKDGCFQSGF---NEETCLVKIITGLLEFEV- 97
Query: 332 ANKSFLKSHLTYLDYIKNKLKGQKDSYLTERVQTKIIVK 370
YL+Y++N+ + ++ ++ TK++++
Sbjct: 98 -----------YLEYLQNRFESSEEQARAVQMSTKVLIQ 125
>pdb|1HHS|A Chain A, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
pdb|1HHS|B Chain B, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
pdb|1HHS|C Chain C, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
pdb|1HHT|P Chain P, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Template
pdb|1HHT|Q Chain Q, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Template
pdb|1HHT|R Chain R, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Template
pdb|1HI0|P Chain P, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Initiation Complex
pdb|1HI0|Q Chain Q, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Initiation Complex
pdb|1HI0|R Chain R, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Initiation Complex
pdb|1HI1|A Chain A, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Bound Ntp
pdb|1HI1|B Chain B, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Bound Ntp
pdb|1HI1|C Chain C, Rna Dependent Rna Polymerase From Dsrna Bacteriophage Phi6
Plus Bound Ntp
Length = 664
Score = 26.2 bits (56), Expect = 6.3
Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 2/59 (3%)
Query: 257 TTPACPIGDKVLAVY--CYAEKVAEILREYYIEFVKNNTNLLQNASQMILNQSGLATST 313
T ACPI VL C+ E R Y + +K +T L + Q+GLA T
Sbjct: 557 TYGACPIYSDVLEAIERCWWNAFGESYRAYREDMLKRDTLELSRYVASMARQAGLAELT 615
>pdb|1JMC|A Chain A, Single Stranded Dna-Binding Domain Of Human Replication
Protein A Bound To Single Stranded Dna, Rpa70 Subunit,
Residues 183 - 420
Length = 246
Score = 26.2 bits (56), Expect = 6.3
Identities = 12/31 (38%), Positives = 19/31 (60%)
Query: 118 QGAQISAVNSQIASILASNTTPKNPSAIEAY 148
+GA++S + S+L+S+T NP EAY
Sbjct: 203 KGARVSDFGGRSLSVLSSSTIIANPDIPEAY 233
>pdb|1ALU| Human Interleukin-6
Length = 186
Score = 26.2 bits (56), Expect = 6.3
Identities = 21/99 (21%), Positives = 43/99 (43%), Gaps = 18/99 (18%)
Query: 272 CYAEKVAEILREYYIEFVKNNTNLLQNASQMILNQSGLATSTYDTQAISNISSLYNYNIV 331
C + E +E E NN NL + A + QSG +T + I+ L + +
Sbjct: 46 CNKSNMCESSKEALAE---NNLNLPKMAEKDGCFQSGF---NEETCLVKIITGLLEFEV- 98
Query: 332 ANKSFLKSHLTYLDYIKNKLKGQKDSYLTERVQTKIIVK 370
YL+Y++N+ + ++ ++ TK++++
Sbjct: 99 -----------YLEYLQNRFESSEEQARAVQMSTKVLIQ 126
>pdb|1FGU|A Chain A, Ssdna-Binding Domain Of The Large Subunit Of Replication
Protein A
pdb|1FGU|B Chain B, Ssdna-Binding Domain Of The Large Subunit Of Replication
Protein A
Length = 252
Score = 26.2 bits (56), Expect = 6.3
Identities = 12/31 (38%), Positives = 19/31 (60%)
Query: 118 QGAQISAVNSQIASILASNTTPKNPSAIEAY 148
+GA++S + S+L+S+T NP EAY
Sbjct: 199 KGARVSDFGGRSLSVLSSSTIIANPDIPEAY 229
>pdb|1GFQ| Ompf Porin (Mutant R82c)
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1HXU|A Chain A, Ompf Porin Mutant Kk
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1HXT|A Chain A, Ompf Porin Mutant Nqaaa
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1GFP| Ompf Porin (Mutant R42c)
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1GFN| Ompf Porin Deletion (Mutant Delta 109-114)
Length = 334
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 276 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 312
>pdb|2OMF| Ompf Porin
pdb|1OPF| The Structure Of Ompf Porin In A Tetragonal Crystal Form
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1GFO| Ompf Porin (Mutant R132p)
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1GFM| Ompf Porin (Mutant D113g)
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1MPF| Matrix Porin (Ompf) Mutant With Gly 119 Replaced By Asp (G119d)
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1HXX|A Chain A, Ompf Porin Mutant Y106f
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
>pdb|1BT9|A Chain A, Ompf Porin Mutant D74a
Length = 340
Score = 25.8 bits (55), Expect = 8.2
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 315 DTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKNKL 351
D + I ++ + + + A F K+ TY+DYI N++
Sbjct: 282 DVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQI 318
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 0.125 0.333
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,810,720
Number of Sequences: 13198
Number of extensions: 64806
Number of successful extensions: 131
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 116
Number of HSP's gapped (non-prelim): 18
length of query: 370
length of database: 2,899,336
effective HSP length: 90
effective length of query: 280
effective length of database: 1,711,516
effective search space: 479224480
effective search space used: 479224480
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: 55 (25.8 bits)