BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 029556
(191 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HW6|A Chain A, Crystal Structure Of A Hypothetical Protein (Bacova_00264)
From Bacteroides Ovatus Atcc 8483 At 1.70 A Resolution
pdb|4HW6|B Chain B, Crystal Structure Of A Hypothetical Protein (Bacova_00264)
From Bacteroides Ovatus Atcc 8483 At 1.70 A Resolution
pdb|4HW6|C Chain C, Crystal Structure Of A Hypothetical Protein (Bacova_00264)
From Bacteroides Ovatus Atcc 8483 At 1.70 A Resolution
pdb|4HW6|D Chain D, Crystal Structure Of A Hypothetical Protein (Bacova_00264)
From Bacteroides Ovatus Atcc 8483 At 1.70 A Resolution
Length = 433
Score = 34.3 bits (77), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 30/60 (50%), Gaps = 5/60 (8%)
Query: 76 LSEESVVKRLAGDGVQ---GYSDGEPGS-ARFDKPKSFAVDMKGN-IYVADKSNHVIRKI 130
L+ E V AG G GY DGE S A F+ P S A D K Y+ D NH +RKI
Sbjct: 370 LTPEGRVTTYAGRGNSREWGYVDGELRSQALFNHPTSIAYDXKRKCFYIGDCDNHRVRKI 429
>pdb|1RWI|B Chain B, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
pdb|1RWI|A Chain A, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
pdb|1RWL|A Chain A, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
Length = 270
Score = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 103 FDKPKSFAVDMKGNIYVADKSNHVIRKI 130
+ P+ AVD +G +YVAD+ N+ + K+
Sbjct: 107 LNYPEGLAVDTQGAVYVADRGNNRVVKL 134
Score = 29.6 bits (65), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 103 FDKPKSFAVDMKGNIYVADKSNHVIRKITNLDHGNQLI 140
+ P AVD GN+YV D N+ + K+ + NQ++
Sbjct: 149 LNDPDGVAVDNSGNVYVTDTDNNRVVKL-EAESNNQVV 185
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 103 FDKPKSFAVDMKGNIYVADKSNHVIRKITNLD 134
+ P + AVD +YVAD+ N + K+T+L+
Sbjct: 233 LNTPLAVAVDSDRTVYVADRGNDRVVKLTSLE 264
>pdb|2AYI|A Chain A, Wild-Type Ampt From Thermus Thermophilus
pdb|2AYI|B Chain B, Wild-Type Ampt From Thermus Thermophilus
pdb|2AYI|C Chain C, Wild-Type Ampt From Thermus Thermophilus
pdb|2AYI|D Chain D, Wild-Type Ampt From Thermus Thermophilus
pdb|2AYI|E Chain E, Wild-Type Ampt From Thermus Thermophilus
Length = 408
Score = 30.4 bits (67), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 29/49 (59%), Gaps = 7/49 (14%)
Query: 101 ARFDKPKSFAVDMKGNIYVADKSNHVIRKITNLDHGNQLIRQINLKPED 149
ARF++ FAV+++ A+K V+R++ + D G + + ++ L P D
Sbjct: 282 ARFER--GFAVEVR-----AEKGEEVLRRLLDTDEGARRLGEVALVPAD 323
>pdb|3EY9|A Chain A, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EY9|B Chain B, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
Length = 572
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 42 QLEINPHSVIDRPGSSDLIVLDSSRSAFYTLSFPLSEESVVKRLAGDGVQGYSDGEPGSA 101
Q++INP S I D+ ++ +S L PL EE ++ ++ Y D G
Sbjct: 290 QIDINPAS-IGAHSKVDMALVGDIKSTLRAL-LPLVEEKADRKFLDKALEDYRDARKGLD 347
Query: 102 RFDKPKSFAVDMKGNIYVADKSNH 125
KP A+ + Y+A + +H
Sbjct: 348 DLAKPSEKAIHPQ---YLAQQISH 368
>pdb|3EYA|A Chain A, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|B Chain B, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|C Chain C, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|D Chain D, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|E Chain E, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|F Chain F, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|G Chain G, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|H Chain H, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|I Chain I, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|J Chain J, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|K Chain K, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
pdb|3EYA|L Chain L, Structural Basis For Membrane Binding And Catalytic
Activation Of The Peripheral Membrane Enzyme Pyruvate
Oxidase From Escherichia Coli
Length = 549
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 42 QLEINPHSVIDRPGSSDLIVLDSSRSAFYTLSFPLSEESVVKRLAGDGVQGYSDGEPGSA 101
Q++INP S I D+ ++ +S L PL EE ++ ++ Y D G
Sbjct: 290 QIDINPAS-IGAHSKVDMALVGDIKSTLRAL-LPLVEEKADRKFLDKALEDYRDARKGLD 347
Query: 102 RFDKPKSFAVDMKGNIYVADKSNH 125
KP A+ + Y+A + +H
Sbjct: 348 DLAKPSEKAIHPQ---YLAQQISH 368
>pdb|3I57|A Chain A, Type 2 Repeat Of The Mucus Binding Protein Mub From
Lactobacillus Reuteri
pdb|3I57|B Chain B, Type 2 Repeat Of The Mucus Binding Protein Mub From
Lactobacillus Reuteri
Length = 185
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/50 (24%), Positives = 22/50 (44%)
Query: 55 GSSDLIVLDSSRSAFYTLSFPLSEESVVKRLAGDGVQGYSDGEPGSARFD 104
G +D ++ + + P S +K+ GDG + + D P +FD
Sbjct: 11 GETDQMLRQDDLDGYTDETIPYSTAEGIKKFEGDGYELFKDNFPAGEKFD 60
>pdb|1ZJC|A Chain A, Aminopeptidase S From S. Aureus
Length = 418
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 30/49 (61%), Gaps = 2/49 (4%)
Query: 118 YVADKSNHVIRKITNLDHGNQLIRQINLKPEDCSKSSQSGSGMFWVTVF 166
+ A+K V++ + N D G++ + ++ L P+D S++ + +F+ T+F
Sbjct: 298 FSAEKGEAVLKDLINTDEGSRRLGEVALVPDDSPISNR--NTIFYNTLF 344
>pdb|3HRP|A Chain A, Crystal Structure Of Structural Genomics Protein Of
Unknown Function (np_812590.1) From Bacteroides
Thetaiotaomicron Vpi-5482 At 1.70 A Resolution
Length = 409
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 95 DGEPGSARFDKPKSFAVDMKGNIYVADK-SNHVIRKITNLD 134
DG A F +P VD GN Y+ D + +RK+ LD
Sbjct: 314 DGLREEALFAQPNGXTVDEDGNFYIVDGFKGYCLRKLDILD 354
>pdb|3BC9|A Chain A, Alpha-Amylase B In Complex With Acarbose
pdb|3BCD|A Chain A, Alpha-Amylase B In Complex With Maltotetraose And
Alpha-Cyclodextrin
pdb|3BCF|A Chain A, Alpha-Amylase B From Halothermothrix Orenii
Length = 599
Score = 26.9 bits (58), Expect = 6.6, Method: Composition-based stats.
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
Query: 88 DGVQGYSD--GEPGSARFDKP-KSFAVDMKGNIYVADKSN 124
D ++G+ D G P FD P +SF VDM Y+AD N
Sbjct: 387 DDLKGFLDTVGNPDLRVFDFPLRSFFVDMLNGAYMADLRN 426
>pdb|2GLX|A Chain A, Crystal Structure Analysis Of Bacterial 1,5-Af Reductase
pdb|2GLX|B Chain B, Crystal Structure Analysis Of Bacterial 1,5-Af Reductase
pdb|2GLX|C Chain C, Crystal Structure Analysis Of Bacterial 1,5-Af Reductase
pdb|2GLX|D Chain D, Crystal Structure Analysis Of Bacterial 1,5-Af Reductase
pdb|2GLX|E Chain E, Crystal Structure Analysis Of Bacterial 1,5-Af Reductase
pdb|2GLX|F Chain F, Crystal Structure Analysis Of Bacterial 1,5-Af Reductase
Length = 332
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 7/70 (10%)
Query: 41 HQLEINPHSV---IDRPGSSDLIVLDSSRSAFYTLSFPL----SEESVVKRLAGDGVQGY 93
H + + PH ++RP + ++LD + TL F L +E + AG G +G
Sbjct: 150 HAVYLPPHLQGWRLERPEAGGGVILDITVHDADTLRFVLNDDPAEAVAISHSAGMGKEGV 209
Query: 94 SDGEPGSARF 103
DG G RF
Sbjct: 210 EDGVMGVLRF 219
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,230,318
Number of Sequences: 62578
Number of extensions: 196708
Number of successful extensions: 390
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 381
Number of HSP's gapped (non-prelim): 16
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
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: 48 (23.1 bits)