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= 036650
(334 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HA1|A Chain A, Alanine Racemase From Bacillus Anthracis (Ames)
pdb|3HA1|B Chain B, Alanine Racemase From Bacillus Anthracis (Ames)
Length = 397
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 223 FAAIAMGIALLRMIPK---RPFL---LTAAYSFAFAISSPIGV--GIGIAIDATTQGHIA 274
F A+ +GIA+ + P RPFL L A S ++ V G GI+ + T +
Sbjct: 220 FNAVRIGIAMYGLSPSVEIRPFLPFKLEPALSLHTKVAHIKQVIKGDGISYNVTYRTKTE 279
Query: 275 DWIYAISMGLACG 287
+WI +++G A G
Sbjct: 280 EWIATVAIGYADG 292
>pdb|2VD9|A Chain A, The Crystal Structure Of Alanine Racemase From Bacillus
Anthracis (Ba0252) With Bound L-Ala-P
pdb|2VD9|B Chain B, The Crystal Structure Of Alanine Racemase From Bacillus
Anthracis (Ba0252) With Bound L-Ala-P
Length = 391
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 223 FAAIAMGIALLRMIPK---RPFL---LTAAYSFAFAIS--SPIGVGIGIAIDATTQGHIA 274
F A+ +GIA+ + P RPFL L A S ++ + G GI+ + T +
Sbjct: 222 FNAVRIGIAMYGLSPSVEIRPFLPFXLEPALSLHTXVAHIKQVIXGDGISYNVTYRTXTE 281
Query: 275 DWIYAISMGLACG 287
+WI +++G A G
Sbjct: 282 EWIATVAIGYADG 294
>pdb|2VD8|A Chain A, The Crystal Structure Of Alanine Racemase From Bacillus
Anthracis (ba0252)
pdb|2VD8|B Chain B, The Crystal Structure Of Alanine Racemase From Bacillus
Anthracis (ba0252)
Length = 391
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 223 FAAIAMGIALLRMIPK---RPFL---LTAAYSFAFAIS--SPIGVGIGIAIDATTQGHIA 274
F A+ +GIA+ + P RPFL L A S ++ + G GI+ + T +
Sbjct: 222 FNAVRIGIAMYGLSPSVEIRPFLPFXLEPALSLHTXVAHIKQVIXGDGISYNVTYRTXTE 281
Query: 275 DWIYAISMGLACG 287
+WI +++G A G
Sbjct: 282 EWIATVAIGYADG 294
>pdb|3R9A|A Chain A, Human Alanine-Glyoxylate Aminotransferase In Complex With
The Tpr Domain Of Human Pex5p
pdb|3R9A|C Chain C, Human Alanine-Glyoxylate Aminotransferase In Complex With
The Tpr Domain Of Human Pex5p
Length = 394
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 4/76 (5%)
Query: 53 GLILVKIWCLIILLVSTFAGGVSPYFYRWNESFLLLGTQFAGGVFLGTSMMHFLSDSNET 112
G + + CL+++ GG Y R L G+Q A GTS++ F S++
Sbjct: 172 GELCHRYKCLLLVDSVASLGGTPLYMDRQGIDILYSGSQXALNAPPGTSLISF---SDKA 228
Query: 113 FKDLTS-KSYPFAFML 127
K + S K+ PF+F L
Sbjct: 229 KKKMYSRKTKPFSFYL 244
>pdb|1J04|A Chain A, Structural Mechanism Of Enzyme Mistargeting In Hereditary
Kidney Stone Disease In Vitro
Length = 392
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 61 CLIILLVSTFAGGVSPYFYRWNESFLLLGTQFAGGVFLGTSMMHFLSDSNETFKDLTS-K 119
CL+++ GG Y R L G+Q A GTS++ F S++ K + S K
Sbjct: 178 CLLLVDSVASLGGTPLYMDRQGIDILYSGSQXALNAPPGTSLISF---SDKAKKKMYSRK 234
Query: 120 SYPFAFML 127
+ PF+F L
Sbjct: 235 TKPFSFYL 242
>pdb|4FMR|A Chain A, Crystal Structure Of A Hypothetical Protein (Bvu_2165)
From Bacteroides Vulgatus Atcc 8482 At 2.25 A Resolution
pdb|4FMR|B Chain B, Crystal Structure Of A Hypothetical Protein (Bvu_2165)
From Bacteroides Vulgatus Atcc 8482 At 2.25 A Resolution
pdb|4FMR|C Chain C, Crystal Structure Of A Hypothetical Protein (Bvu_2165)
From Bacteroides Vulgatus Atcc 8482 At 2.25 A Resolution
pdb|4FMR|D Chain D, Crystal Structure Of A Hypothetical Protein (Bvu_2165)
From Bacteroides Vulgatus Atcc 8482 At 2.25 A Resolution
Length = 265
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 193 HSVFEGIAIGVSATKGEAWRNLWTISLHKIFAAIAMGIALLRMI 236
SV G+ GV+ +G A +N W + + I+ ++ G AL I
Sbjct: 73 ESVNTGLFRGVAQFRGVAKQNAWDAATNSIYVSLTQGKALREAI 116
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
0.327 0.140 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,252,019
Number of Sequences: 62578
Number of extensions: 317522
Number of successful extensions: 770
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 768
Number of HSP's gapped (non-prelim): 8
length of query: 334
length of database: 14,973,337
effective HSP length: 99
effective length of query: 235
effective length of database: 8,778,115
effective search space: 2062857025
effective search space used: 2062857025
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)