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= 043563
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KVN|X Chain X, Crystal Structure Of The Full-Length Autotransporter Esta
From Pseudomonas Aeruginosa
pdb|3KVN|A Chain A, Crystal Structure Of The Full-Length Autotransporter Esta
From Pseudomonas Aeruginosa
Length = 632
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 46/179 (25%), Positives = 71/179 (39%), Gaps = 32/179 (17%)
Query: 79 SVFIVSIGSNDYINNYLETSLYDTSKRYTPQQFAQLLVYKLSQQLERLYNLGARKIVVFE 138
+++ ++ G ND++ + L D AQ +L ++ L GAR IVV+
Sbjct: 148 ALYYITGGGNDFLQGRI---LNDVQ--------AQQAAGRLVDSVQALQQAGARYIVVWL 196
Query: 139 LGPIGCLPWITRNNKHTGQCVEDTNQIVSYFNNMLPAMLQNLTTSLKGSNFINGHGHGVG 198
L +G P G +Q+ FN L A L S G+N I + +
Sbjct: 197 LPDLGLTP-----ATFGGPLQPFASQLSGTFNAELTAQL-----SQAGANVIPLNIPLLL 246
Query: 199 YDAIINPSKYGIADASNPCCTAFFNGTSGCIPYLRPCNNTN-------KHYFWDGYHPT 250
+ + NP+ +G+A N T F +GC + P N K F D HPT
Sbjct: 247 KEGMANPASFGLAADQNLIGTCFSG--NGCT--MNPTYGINGSTPDPSKLLFNDSVHPT 301
>pdb|3A6M|A Chain A, Crystal Structure Of Grpe From Thermus Thermophilus Hb8
pdb|3A6M|B Chain B, Crystal Structure Of Grpe From Thermus Thermophilus Hb8
Length = 177
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 20/32 (62%)
Query: 47 FEEQVGLFQDSVKSLQQRYFQILVDFSNYLSK 78
EE++ ++ +K L+ +Y ++L DF NY +
Sbjct: 24 LEERLKAAEEELKGLKDKYLRLLADFDNYRKR 55
>pdb|1W85|B Chain B, The Crystal Structure Of Pyruvate Dehydrogenase E1 Bound
To The Peripheral Subunit Binding Domain Of E2
pdb|1W85|D Chain D, The Crystal Structure Of Pyruvate Dehydrogenase E1 Bound
To The Peripheral Subunit Binding Domain Of E2
pdb|1W85|F Chain F, The Crystal Structure Of Pyruvate Dehydrogenase E1 Bound
To The Peripheral Subunit Binding Domain Of E2
pdb|1W85|H Chain H, The Crystal Structure Of Pyruvate Dehydrogenase E1 Bound
To The Peripheral Subunit Binding Domain Of E2
pdb|1W88|B Chain B, The Crystal Structure Of Pyruvate Dehydrogenase E1(D180n,
E183q) Bound To The Peripheral Subunit Binding Domain Of
E2
pdb|1W88|D Chain D, The Crystal Structure Of Pyruvate Dehydrogenase E1(D180n,
E183q) Bound To The Peripheral Subunit Binding Domain Of
E2
pdb|1W88|F Chain F, The Crystal Structure Of Pyruvate Dehydrogenase E1(D180n,
E183q) Bound To The Peripheral Subunit Binding Domain Of
E2
pdb|1W88|H Chain H, The Crystal Structure Of Pyruvate Dehydrogenase E1(D180n,
E183q) Bound To The Peripheral Subunit Binding Domain Of
E2
Length = 324
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 45/92 (48%), Gaps = 6/92 (6%)
Query: 21 LTGLNYASGSCGILPET-GSPFGRCLNFEEQVGLFQDSVKSL--QQRYFQILVDFSNYLS 77
+ + Y +G +P T SPFG ++ E L DS++ L QQ ++++ + Y +
Sbjct: 97 MARIRYRTGGRYHMPITIRSPFGGGVHTPE---LHSDSLEGLVAQQPGLKVVIPSTPYDA 153
Query: 78 KSVFIVSIGSNDYINNYLETSLYDTSKRYTPQ 109
K + I +I ND + LY + ++ P+
Sbjct: 154 KGLLISAIRDNDPVIFLEHLKLYRSFRQEVPE 185
>pdb|3DUF|B Chain B, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DUF|D Chain D, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DUF|F Chain F, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DUF|H Chain H, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DV0|B Chain B, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DV0|D Chain D, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DV0|F Chain F, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DV0|H Chain H, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DVA|B Chain B, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DVA|D Chain D, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DVA|F Chain F, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
pdb|3DVA|H Chain H, Snapshots Of Catalysis In The E1 Subunit Of The Pyruvate
Dehydrogenase Multi-Enzyme Complex
Length = 325
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 45/92 (48%), Gaps = 6/92 (6%)
Query: 21 LTGLNYASGSCGILPET-GSPFGRCLNFEEQVGLFQDSVKSL--QQRYFQILVDFSNYLS 77
+ + Y +G +P T SPFG ++ E L DS++ L QQ ++++ + Y +
Sbjct: 98 MARIRYRTGGRYHMPITIRSPFGGGVHTPE---LHSDSLEGLVAQQPGLKVVIPSTPYDA 154
Query: 78 KSVFIVSIGSNDYINNYLETSLYDTSKRYTPQ 109
K + I +I ND + LY + ++ P+
Sbjct: 155 KGLLISAIRDNDPVIFLEHLKLYRSFRQEVPE 186
>pdb|3RE9|A Chain A, Crystal Structure Of Sortasec1 From Streptococcus Suis
Length = 187
Score = 27.3 bits (59), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 83 VSIGSNDYINNYLETSLYDTSKRYT--PQQFAQLLV 116
V IG YI+N +ET Y+ + P QF +LLV
Sbjct: 108 VKIGDTFYIHNIVETLAYEVDQIVVAEPTQFEELLV 143
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
0.321 0.139 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,929,559
Number of Sequences: 62578
Number of extensions: 376190
Number of successful extensions: 731
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 730
Number of HSP's gapped (non-prelim): 6
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
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: 51 (24.3 bits)