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= 031159
(164 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VCY|A Chain A, Structure Of Mura (Udp-N-Acetylglucosamine Enolpyruvyl
Transferase), From Vibrio Fischeri In Complex With
Substrate Udp-N- Acetylglucosamine And The Drug
Fosfomycin.
pdb|3VCY|B Chain B, Structure Of Mura (Udp-N-Acetylglucosamine Enolpyruvyl
Transferase), From Vibrio Fischeri In Complex With
Substrate Udp-N- Acetylglucosamine And The Drug
Fosfomycin.
pdb|3VCY|C Chain C, Structure Of Mura (Udp-N-Acetylglucosamine Enolpyruvyl
Transferase), From Vibrio Fischeri In Complex With
Substrate Udp-N- Acetylglucosamine And The Drug
Fosfomycin.
pdb|3VCY|D Chain D, Structure Of Mura (Udp-N-Acetylglucosamine Enolpyruvyl
Transferase), From Vibrio Fischeri In Complex With
Substrate Udp-N- Acetylglucosamine And The Drug
Fosfomycin
Length = 430
Score = 30.0 bits (66), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 65 LTVRVTSAYGNSYH--YADRVDSGQFAFTAAEAGDYMAC 101
+T+ G YH ADR+++G F AA +G + C
Sbjct: 214 ITIEGVERLGGGYHEVVADRIETGTFLVAAAVSGGKIVC 252
>pdb|4EG5|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1312
pdb|4EG5|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1312
Length = 542
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 25/50 (50%)
Query: 88 FAFTAAEAGDYMACFWAVDHSPQTTVTIDFDWRTGVQAKDWSNVAKKGSV 137
+ FT A AG++ CF +D+S + + V + W+ + +KG +
Sbjct: 74 YDFTTAVAGEFKKCFEQMDYSIDYFIRTTNEQHKAVVKELWTKLEQKGDI 123
>pdb|4EG1|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Substrate Methionine
pdb|4EG1|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Substrate Methionine
pdb|4EG3|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Product Methionyl-Adenylate
pdb|4EG3|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Product Methionyl-Adenylate
pdb|4EG6|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1325
pdb|4EG6|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1325
pdb|4EG8|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Compound Chem 89
pdb|4EG8|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Compound Chem 89
pdb|3U1E|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1387
pdb|3U1E|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1387
pdb|3U1F|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1392
pdb|3U1F|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1392
pdb|3U1G|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1415
pdb|3U1G|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1415
pdb|3U20|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1444
pdb|3U20|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1444
Length = 542
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 25/50 (50%)
Query: 88 FAFTAAEAGDYMACFWAVDHSPQTTVTIDFDWRTGVQAKDWSNVAKKGSV 137
+ FT A AG++ CF +D+S + + V + W+ + +KG +
Sbjct: 74 YDFTTAVAGEFKKCFEQMDYSIDYFIRTTNEQHKAVVKELWTKLEQKGDI 123
>pdb|1RWA|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase
pdb|1RWC|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase
pdb|1RWF|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase In Complex With Chondroitin Tetrasaccharide
pdb|1RWG|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase In Complex With Chondroitin Tetrasaccharide
pdb|1RWH|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase In Complex With Chondroitin Tetrasaccharide
Length = 757
Score = 26.9 bits (58), Expect = 5.3, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 24/63 (38%), Gaps = 10/63 (15%)
Query: 85 SGQFAFTAAEAGDYMACFWAV---DHSPQTTV-------TIDFDWRTGVQAKDWSNVAKK 134
SG F ++ G Y FWA + P TV ++ W V A +WS
Sbjct: 421 SGMTYFYTSDLGQYDDAFWATANYNRLPGITVDTTPLPDKVEGQWGAAVPADEWSGATAL 480
Query: 135 GSV 137
G V
Sbjct: 481 GEV 483
>pdb|3C5B|A Chain A, De Novo Model Of Bacteriophage Epsilon 15 Major Capsid
Protein Gp7
pdb|3C5B|B Chain B, De Novo Model Of Bacteriophage Epsilon 15 Major Capsid
Protein Gp7
pdb|3C5B|C Chain C, De Novo Model Of Bacteriophage Epsilon 15 Major Capsid
Protein Gp7
pdb|3C5B|D Chain D, De Novo Model Of Bacteriophage Epsilon 15 Major Capsid
Protein Gp7
pdb|3C5B|E Chain E, De Novo Model Of Bacteriophage Epsilon 15 Major Capsid
Protein Gp7
pdb|3C5B|F Chain F, De Novo Model Of Bacteriophage Epsilon 15 Major Capsid
Protein Gp7
pdb|3C5B|G Chain G, De Novo Model Of Bacteriophage Epsilon 15 Major Capsid
Protein Gp7
Length = 335
Score = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 8/27 (29%), Positives = 17/27 (62%)
Query: 116 DFDWRTGVQAKDWSNVAKKGSVDVMEL 142
+F W G+ +DW ++++ ++DV L
Sbjct: 221 EFKWDIGLSVRDWRSISRICNIDVTTL 247
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
0.317 0.129 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,506,235
Number of Sequences: 62578
Number of extensions: 175055
Number of successful extensions: 397
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 6
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
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: 47 (22.7 bits)