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= 043434
(90 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XAA|A Chain A, Alcohol Dehydrogenase Adh-'a' From Rhodococcus Ruber Dsm
44541 At Ph 8.5 In Complex With Nad And Butane-1,4-Diol
pdb|2XAA|B Chain B, Alcohol Dehydrogenase Adh-'a' From Rhodococcus Ruber Dsm
44541 At Ph 8.5 In Complex With Nad And Butane-1,4-Diol
pdb|2XAA|C Chain C, Alcohol Dehydrogenase Adh-'a' From Rhodococcus Ruber Dsm
44541 At Ph 8.5 In Complex With Nad And Butane-1,4-Diol
pdb|2XAA|D Chain D, Alcohol Dehydrogenase Adh-'a' From Rhodococcus Ruber Dsm
44541 At Ph 8.5 In Complex With Nad And Butane-1,4-Diol
pdb|3JV7|A Chain A, Structure Of Adh-A From Rhodococcus Ruber
pdb|3JV7|B Chain B, Structure Of Adh-A From Rhodococcus Ruber
pdb|3JV7|C Chain C, Structure Of Adh-A From Rhodococcus Ruber
pdb|3JV7|D Chain D, Structure Of Adh-A From Rhodococcus Ruber
Length = 345
Score = 28.5 bits (62), Expect = 0.99, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 16 GFPGLLSVAMKGDDLRHMEVIGDIDEVALA 45
G PG ++ M D RH+ IGD+D VA A
Sbjct: 120 GSPGSMAEYMIVDSARHLVPIGDLDPVAAA 149
>pdb|3UXK|A Chain A, P. Putida Mandelate Racemase Co-Crystallized With The
Intermediate Analogue Benzohydroxamate
pdb|3UXK|B Chain B, P. Putida Mandelate Racemase Co-Crystallized With The
Intermediate Analogue Benzohydroxamate
pdb|3UXK|C Chain C, P. Putida Mandelate Racemase Co-Crystallized With The
Intermediate Analogue Benzohydroxamate
pdb|3UXK|D Chain D, P. Putida Mandelate Racemase Co-Crystallized With The
Intermediate Analogue Benzohydroxamate
pdb|3UXL|A Chain A, P. Putida Mandelate Racemase Co-Crystallized With The
Intermediate Analogue Cupferron
pdb|3UXL|B Chain B, P. Putida Mandelate Racemase Co-Crystallized With The
Intermediate Analogue Cupferron
pdb|3UXL|C Chain C, P. Putida Mandelate Racemase Co-Crystallized With The
Intermediate Analogue Cupferron
pdb|3UXL|D Chain D, P. Putida Mandelate Racemase Co-Crystallized With The
Intermediate Analogue Cupferron
Length = 383
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 14 IAGFPGLLSVAMKGDDLRHMEVIGDIDEVALANMLRRKIGYVEMMKLDILDG 65
+AG+ GL+ +A G D+ + +G + E L +L V+ LDG
Sbjct: 117 LAGYTGLIRMAAAGIDMAAWDALGKVHETPLVKLLGANARPVQAYDSHSLDG 168
>pdb|1DTN|A Chain A, Mandelate Racemase Mutant D270n Co-crystallized With
(s)-atrolactate
Length = 359
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 14 IAGFPGLLSVAMKGDDLRHMEVIGDIDEVALANMLRRKIGYVEMMKLDILDG 65
+AG+ GL+ +A G D+ + +G + E L +L V+ LDG
Sbjct: 93 LAGYTGLIRMAAAGIDMAAWDALGKVHETPLVKLLGANARPVQAYDSHSLDG 144
>pdb|1MRA|A Chain A, Mandelate Racemase Mutant D270n Co-Crystallized With
(S)-Atrolactate
Length = 359
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 14 IAGFPGLLSVAMKGDDLRHMEVIGDIDEVALANMLRRKIGYVEMMKLDILDG 65
+AG+ GL+ +A G D+ + +G + E L +L V+ LDG
Sbjct: 93 LAGYTGLIRMAAAGIDMAAWDALGKVHETPLVKLLGANARPVQAYDSHSLDG 144
>pdb|1MDR|A Chain A, The Role Of Lysine 166 In The Mechanism Of Mandelate
Racemase From Pseudomonas Putida: Mechanistic And
Crystallographic Evidence For Stereospecific Alkylation
By (r)-alpha-phenylglycidate
Length = 359
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 14 IAGFPGLLSVAMKGDDLRHMEVIGDIDEVALANMLRRKIGYVEMMKLDILDG 65
+AG+ GL+ +A G D+ + +G + E L +L V+ LDG
Sbjct: 93 LAGYTGLIRMAAAGIDMAAWDALGKVHETPLVKLLGANARPVQAYDSHSLDG 144
>pdb|1MNS|A Chain A, On The Role Of Lysine 166 In The Mechanism Of Mandelate
Racemase From Pseudomonas Putida: Mechanistic And
Crystallographic Evidence For Stereospecific Alkylation
By (R)-Alpha-Phenylglycidate
pdb|2MNR|A Chain A, Mechanism Of The Reaction Catalyzed By Mandelate Racemase.
2. Crystal Structure Of Mandelate Racemase At 2.5
Angstroms Resolution: Identification Of The Active Site
And Possible Catalytic Residues
Length = 357
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 14 IAGFPGLLSVAMKGDDLRHMEVIGDIDEVALANMLRRKIGYVEMMKLDILDG 65
+AG+ GL+ +A G D+ + +G + E L +L V+ LDG
Sbjct: 91 LAGYTGLIRMAAAGIDMAAWDALGKVHETPLVKLLGANARPVQAYDSHSLDG 142
>pdb|1MDL|A Chain A, Mandelate Racemase Mutant K166r Co-Crystallized With (R)-
Mandelate
Length = 359
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 14 IAGFPGLLSVAMKGDDLRHMEVIGDIDEVALANMLRRKIGYVEMMKLDILDG 65
+AG+ GL+ +A G D+ + +G + E L +L V+ LDG
Sbjct: 93 LAGYTGLIRMAAAGIDMAAWDALGKVHETPLVKLLGANARPVQAYDSHSLDG 144
>pdb|3FMC|A Chain A, Crystal Structure Of A Putative Succinylglutamate
Desuccinylase Aspartoacylase Family Protein (Sama_0604)
From Shewanella Amazonensis Sb2b At 1.80 A Resolution
pdb|3FMC|B Chain B, Crystal Structure Of A Putative Succinylglutamate
Desuccinylase Aspartoacylase Family Protein (Sama_0604)
From Shewanella Amazonensis Sb2b At 1.80 A Resolution
pdb|3FMC|C Chain C, Crystal Structure Of A Putative Succinylglutamate
Desuccinylase Aspartoacylase Family Protein (Sama_0604)
From Shewanella Amazonensis Sb2b At 1.80 A Resolution
pdb|3FMC|D Chain D, Crystal Structure Of A Putative Succinylglutamate
Desuccinylase Aspartoacylase Family Protein (Sama_0604)
From Shewanella Amazonensis Sb2b At 1.80 A Resolution
Length = 368
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 30 LRHMEVIGDIDEVALANML--RRKIGYVEMMKLDILDGRN 67
L H E++GDI V LAN L +K G + + D + G N
Sbjct: 60 LEHYELLGDISLVPLANPLGINQKSGEFTLGRFDPITGVN 99
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
0.328 0.143 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,077,530
Number of Sequences: 62578
Number of extensions: 63294
Number of successful extensions: 180
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 173
Number of HSP's gapped (non-prelim): 8
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
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: 45 (21.9 bits)