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= 045170
(135 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1M6E|X Chain X, Crystal Structure Of Salicylic Acid Carboxyl
Methyltransferase (Samt)
Length = 359
Score = 69.7 bits (169), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 35/71 (49%), Positives = 45/71 (63%), Gaps = 2/71 (2%)
Query: 54 EFPFYLNDLLGNDFNMLFQGLSSFAERYKDLSLFTVGAPGSFHGWLFPTNSLHLVHSSYG 113
E+ +LNDL GNDFN +F+ L E D F G PGSF+G LFP N+LH +HSSY
Sbjct: 91 EYQIFLNDLPGNDFNAIFRSLP--IENDVDGVCFINGVPGSFYGRLFPRNTLHFIHSSYS 148
Query: 114 AHWLSKMRLPI 124
WLS++ + I
Sbjct: 149 LMWLSQVPIGI 159
>pdb|2EFJ|A Chain A, The Structure Of 1,7 Dimethylxanthine Methyltransferase
Length = 384
Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 42/70 (60%), Gaps = 6/70 (8%)
Query: 57 FYLNDLLGNDFNMLFQGLSSF-----AERYKDLSLFTVGA-PGSFHGWLFPTNSLHLVHS 110
+LNDL NDFN +F+ L SF E + + +GA PGSF+ LFP S+H +HS
Sbjct: 96 IFLNDLFQNDFNSVFKLLPSFYRNLEKENGRKIGSCLIGAMPGSFYSRLFPEESMHFLHS 155
Query: 111 SYGAHWLSKM 120
Y HWLS++
Sbjct: 156 CYCLHWLSQV 165
>pdb|2EG5|A Chain A, The Structure Of Xanthosine Methyltransferase
pdb|2EG5|C Chain C, The Structure Of Xanthosine Methyltransferase
pdb|2EG5|E Chain E, The Structure Of Xanthosine Methyltransferase
pdb|2EG5|G Chain G, The Structure Of Xanthosine Methyltransferase
Length = 372
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 41/70 (58%), Gaps = 6/70 (8%)
Query: 57 FYLNDLLGNDFNMLFQGLSSFAERYKDLSLFTVGA------PGSFHGWLFPTNSLHLVHS 110
+LNDL NDFN +F+ L SF + + + +G+ PGSF+ LFP S+H +HS
Sbjct: 97 IFLNDLFPNDFNSVFKLLPSFYRKLEKENGRKIGSCLIGAMPGSFYSRLFPEESMHFLHS 156
Query: 111 SYGAHWLSKM 120
Y WLS++
Sbjct: 157 CYCLQWLSQV 166
>pdb|3B5I|A Chain A, Crystal Structure Of Indole-3-Acetic Acid
Methyltransferase
pdb|3B5I|B Chain B, Crystal Structure Of Indole-3-Acetic Acid
Methyltransferase
Length = 374
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 38/76 (50%), Gaps = 9/76 (11%)
Query: 54 EFPFYLNDLLGNDFNMLFQGLSSFAERY---------KDLSLFTVGAPGSFHGWLFPTNS 104
EF + +DL NDFN LFQ L + S F G PGSF+ LFP +
Sbjct: 91 EFTAFFSDLPSNDFNTLFQLLPPLVSNTCMEECLAADGNRSYFVAGVPGSFYRRLFPART 150
Query: 105 LHLVHSSYGAHWLSKM 120
+ HS++ HWLS++
Sbjct: 151 IDFFHSAFSLHWLSQV 166
>pdb|2O2E|A Chain A, Mycobacterium Tuberculosis Tryptophan Synthase Beta
Subunit Dimer (Apoform)
pdb|2O2E|B Chain B, Mycobacterium Tuberculosis Tryptophan Synthase Beta
Subunit Dimer (Apoform)
pdb|2O2J|A Chain A, Mycobacterium Tuberculosis Tryptophan Synthase Beta Chain
Dimer (Apoform)
pdb|2O2J|B Chain B, Mycobacterium Tuberculosis Tryptophan Synthase Beta Chain
Dimer (Apoform)
Length = 422
Score = 26.9 bits (58), Expect = 3.4, Method: Composition-based stats.
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 71 FQGLSSFAERYKDLSLFTVGAPGSFHG 97
F+ E + + FT G+PG+FHG
Sbjct: 281 FEAAGDGVETGRHAATFTAGSPGAFHG 307
>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 = 25.8 bits (55), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 90 GAPGSFHGWLFPTNSLHLVHSSYGAHWLSKMRL 122
G P S H LF S HL+ ++ AHWL ++ L
Sbjct: 289 GIPMSSH--LFQEISAHLLAATPTAHWLERLDL 319
>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 = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 90 GAPGSFHGWLFPTNSLHLVHSSYGAHWLSKMRL 122
G P S H LF S HL+ ++ AHWL ++ L
Sbjct: 291 GIPMSSH--LFQEISAHLLAATPTAHWLERLDL 321
>pdb|1DTN|A Chain A, Mandelate Racemase Mutant D270n Co-crystallized With
(s)-atrolactate
Length = 359
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 90 GAPGSFHGWLFPTNSLHLVHSSYGAHWLSKMRL 122
G P S H LF S HL+ ++ AHWL ++ L
Sbjct: 291 GIPMSSH--LFQEISAHLLAATPTAHWLQRLDL 321
>pdb|1MDL|A Chain A, Mandelate Racemase Mutant K166r Co-Crystallized With (R)-
Mandelate
Length = 359
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 90 GAPGSFHGWLFPTNSLHLVHSSYGAHWLSKMRL 122
G P S H LF S HL+ ++ AHWL ++ L
Sbjct: 291 GIPMSSH--LFQEISAHLLAATPTAHWLERLDL 321
>pdb|1MRA|A Chain A, Mandelate Racemase Mutant D270n Co-Crystallized With
(S)-Atrolactate
Length = 359
Score = 25.8 bits (55), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 90 GAPGSFHGWLFPTNSLHLVHSSYGAHWLSKMRL 122
G P S H LF S HL+ ++ AHWL ++ L
Sbjct: 291 GIPMSSH--LFQEISAHLLAATPTAHWLERLDL 321
>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 = 25.4 bits (54), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 90 GAPGSFHGWLFPTNSLHLVHSSYGAHWLSKMRL 122
G P S H LF S HL+ ++ AHWL ++ L
Sbjct: 315 GIPMSSH--LFQEISAHLLAATPTAHWLERLDL 345
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
0.325 0.142 0.471
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,961,044
Number of Sequences: 62578
Number of extensions: 140225
Number of successful extensions: 370
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 360
Number of HSP's gapped (non-prelim): 13
length of query: 135
length of database: 14,973,337
effective HSP length: 88
effective length of query: 47
effective length of database: 9,466,473
effective search space: 444924231
effective search space used: 444924231
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 46 (22.3 bits)