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= 034060
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NUD|C Chain C, The Structure Of The Type Iii Effector Avrb Complexed
With A High-Affinity Rin4 Peptide
pdb|2NUD|D Chain D, The Structure Of The Type Iii Effector Avrb Complexed
With A High-Affinity Rin4 Peptide
Length = 35
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 14 VPQFGDWDQK--GQVPDYSLDFSKIREMR 40
VP+FGDWD+ Y+ F+K+RE R
Sbjct: 7 VPKFGDWDENNPSSADGYTHIFNKVREER 35
>pdb|1H2G|B Chain B, Altered Substrate Specificity Mutant Of Penicillin Acylase
Length = 557
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 3 DRKEKNAPWLSVPQFGDWDQKGQVP 27
DR+ + P L VP G WD KG +P
Sbjct: 198 DRQSGHDPRLPVPGTGKWDWKGLLP 222
>pdb|1GM8|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
pdb|1GM7|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
pdb|1GKF|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
Length = 557
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 3 DRKEKNAPWLSVPQFGDWDQKGQVP 27
DR+ + P L VP G WD KG +P
Sbjct: 198 DRQSGHDPRLPVPGTGKWDWKGLLP 222
>pdb|1FXH|B Chain B, Mutant Of Penicillin Acylase Impaired In Catalysis With
Phenylacetic Acid In The Active Site
pdb|1FXV|B Chain B, Penicillin Acylase Mutant Impaired In Catalysis With
Penicillin G In The Active Site
Length = 557
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 3 DRKEKNAPWLSVPQFGDWDQKGQVP 27
DR+ + P L VP G WD KG +P
Sbjct: 198 DRQSGHDPRLPVPGTGKWDWKGLLP 222
>pdb|1KEC|B Chain B, Penicillin Acylase Mutant With Phenyl Proprionic Acid
Length = 557
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 3 DRKEKNAPWLSVPQFGDWDQKGQVP 27
DR+ + P L VP G WD KG +P
Sbjct: 198 DRQSGHDPRLPVPGTGKWDWKGLLP 222
>pdb|1E3A|B Chain B, A Slow Processing Precursor Penicillin Acylase From
Escherichia Coli
Length = 560
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 3 DRKEKNAPWLSVPQFGDWDQKGQVP 27
DR+ + P L VP G WD KG +P
Sbjct: 201 DRQSGHDPRLPVPGTGKWDWKGLLP 225
>pdb|1JX9|B Chain B, Penicillin Acylase, Mutant
pdb|1K5Q|B Chain B, Penicillin Acylase, Mutant Complexed With Paa
pdb|1K5S|B Chain B, Penicillin Acylase, Mutant Complexed With Ppa
Length = 557
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 3 DRKEKNAPWLSVPQFGDWDQKGQVP 27
DR+ + P L VP G WD KG +P
Sbjct: 198 DRQSGHDPRLPVPGTGKWDWKGLLP 222
>pdb|1AI4|B Chain B, Penicillin Acylase Complexed With
3,4-Dihydroxyphenylacetic Acid
pdb|1AI5|B Chain B, Penicillin Acylase Complexed With M-Nitrophenylacetic Acid
pdb|1AI6|B Chain B, Penicillin Acylase With P-Hydroxyphenylacetic Acid
pdb|1AI7|B Chain B, Penicillin Acylase Complexed With Phenol
pdb|1AJN|B Chain B, Penicillin Acylase Complexed With P-Nitrophenylacetic Acid
pdb|1AJP|B Chain B, Penicillin Acylase Complexed With
2,5-Dihydroxyphenylacetic Acid
pdb|1AJQ|B Chain B, Penicillin Acylase Complexed With Thiopheneacetic Acid
Length = 557
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 3 DRKEKNAPWLSVPQFGDWDQKGQVP 27
DR+ + P L VP G WD KG +P
Sbjct: 198 DRQSGHDPRLPVPGTGKWDWKGLLP 222
>pdb|1PNK|B Chain B, Penicillin Acylase Has A Single-amino-acid Catalytic
Centre
pdb|1PNL|B Chain B, Penicillin Acylase Has A Single-amino-acid Catalytic
Centre
pdb|1PNM|B Chain B, Penicillin Acylase Has A Single-Amino-Acid Catalytic
Centre
pdb|1GM9|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
pdb|1GK9|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
pdb|1K7D|B Chain B, Penicillin Acylase With Phenyl Proprionic Acid
Length = 557
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 3 DRKEKNAPWLSVPQFGDWDQKGQVP 27
DR+ + P L VP G WD KG +P
Sbjct: 198 DRQSGHDPRLPVPGTGKWDWKGLLP 222
>pdb|1R0K|A Chain A, Crystal Structure Of 1-Deoxy-D-Xylulose 5-Phosphate
Reductoisomerase From Zymomonas Mobilis
pdb|1R0K|B Chain B, Crystal Structure Of 1-Deoxy-D-Xylulose 5-Phosphate
Reductoisomerase From Zymomonas Mobilis
pdb|1R0K|C Chain C, Crystal Structure Of 1-Deoxy-D-Xylulose 5-Phosphate
Reductoisomerase From Zymomonas Mobilis
pdb|1R0K|D Chain D, Crystal Structure Of 1-Deoxy-D-Xylulose 5-Phosphate
Reductoisomerase From Zymomonas Mobilis
pdb|1R0L|A Chain A, 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From
Zymomonas Mobilis In Complex With Nadph
pdb|1R0L|B Chain B, 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From
Zymomonas Mobilis In Complex With Nadph
pdb|1R0L|C Chain C, 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From
Zymomonas Mobilis In Complex With Nadph
pdb|1R0L|D Chain D, 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From
Zymomonas Mobilis In Complex With Nadph
Length = 388
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 20 WDQKGQVPDYSLDFSKIREM 39
W ++ + P SLDF+K+R+M
Sbjct: 276 WPKRMETPAESLDFTKLRQM 295
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
0.313 0.129 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,990,510
Number of Sequences: 62578
Number of extensions: 99214
Number of successful extensions: 167
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 156
Number of HSP's gapped (non-prelim): 13
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)