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= 032838
(132 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1KK9|A Chain A, Crystal Structure Of E. Coli Ycio
Length = 221
Score = 35.4 bits (80), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 5/67 (7%)
Query: 69 SAPQFTKEG---GLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHS 125
+A + +EG Y+ P + VE++++G V V PTD+ YA+ C ++ +
Sbjct: 6 TAAEHHREGIXSQFFYIH--PDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKN 63
Query: 126 AIERLRR 132
A ER+ R
Sbjct: 64 AXERICR 70
>pdb|1K7J|A Chain A, Structural Genomics, Protein Tf1
Length = 206
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 86 PSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
P + VE++++G V V PTD+ YA+ C ++ +A ER+ R
Sbjct: 9 PDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAXERICR 55
>pdb|1JCU|A Chain A, Solution Structure Of Mth1692 Protein From
Methanobacterium Thermoautotrophicum
Length = 208
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 94 LEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
LE + +++ G + + PTDT+Y + + A+ RL R
Sbjct: 16 LEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFR 54
>pdb|2E09|A Chain A, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(E74a) From A Hyperthermophile, Pyrococcus Furiosus
pdb|2E09|B Chain B, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(E74a) From A Hyperthermophile, Pyrococcus Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|2DZX|A Chain A, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(E131- 132a) From A Hyperthermophile, Pyrococcus
Furiosus
pdb|2DZX|B Chain B, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(E131- 132a) From A Hyperthermophile, Pyrococcus
Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|2DZW|A Chain A, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(E244a) From A Hyperthermophile, Pyrococcus Furiosus
pdb|2DZW|B Chain B, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(E244a) From A Hyperthermophile, Pyrococcus Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|2DZS|A Chain A, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(E103a) From A Hyperthermophile, Pyrococcus Furiosus
pdb|2DZS|B Chain B, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(E103a) From A Hyperthermophile, Pyrococcus Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|2DZU|A Chain A, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(D110n) From A Hyperthermophile, Pyrococcus Furiosus
pdb|2DZU|B Chain B, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(D110n) From A Hyperthermophile, Pyrococcus Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|2DZP|A Chain A, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(D17n) From A Hyperthermophile, Pyrococcus Furiosus
pdb|2DZP|B Chain B, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(D17n) From A Hyperthermophile, Pyrococcus Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|2DZV|A Chain A, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(D146a) From A Hyperthermophile, Pyrococcus Furiosus
pdb|2DZV|B Chain B, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(D146a) From A Hyperthermophile, Pyrococcus Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|2DZT|A Chain A, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(D110a) From A Hyperthermophile, Pyrococcus Furiosus
pdb|2DZT|B Chain B, Structure Of Mutant Tryptophan Synthase Alpha-Subunit
(D110a) From A Hyperthermophile, Pyrococcus Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|1GEQ|A Chain A, Entropic Stabilization Of The Tryptophan Synthase
A-Subunit From A Hyperthermophile, Pyrococcus Furiosus:
X-Ray Analysis And Calorimetry
pdb|1GEQ|B Chain B, Entropic Stabilization Of The Tryptophan Synthase
A-Subunit From A Hyperthermophile, Pyrococcus Furiosus:
X-Ray Analysis And Calorimetry
pdb|1WDW|A Chain A, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|C Chain C, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|E Chain E, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|G Chain G, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|I Chain I, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|K Chain K, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
Length = 248
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
K E VV LLKEGA GV+ L I+ + K A E L++
Sbjct: 202 KREHVVSLLKEGANGVVVGSALVKIIGE-KGREATEFLKK 240
>pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product From E.Coli
pdb|1HRU|B Chain B, The Structure Of The Yrdc Gene Product From E.Coli
Length = 188
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 98 VELLKEGAVGVIPTDTLYAIVCDLKSHSAIERL 130
+++L E V PT+ ++ + CD S +A+ RL
Sbjct: 14 IDVLNEERVIAYPTEAVFGVGCDPDSETAVXRL 46
>pdb|1YLF|A Chain A, X-ray Crystal Structure Of Bc1842 Protein From Bacillus
Cereus, A Member Of The Rrf2 Family Of Putative
Transcription Regulators.
pdb|1YLF|B Chain B, X-ray Crystal Structure Of Bc1842 Protein From Bacillus
Cereus, A Member Of The Rrf2 Family Of Putative
Transcription Regulators.
pdb|1YLF|C Chain C, X-ray Crystal Structure Of Bc1842 Protein From Bacillus
Cereus, A Member Of The Rrf2 Family Of Putative
Transcription Regulators
Length = 149
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 73 FTKEGGLMYVEADPSGADSWK-LEPVVELLKEGAVGVIPTDTLYAI 117
+ K+ G +YV P GA K L + L AV V+ D L+ I
Sbjct: 53 YLKQAGFVYVNRGPGGAGLLKDLHEITLLDVYHAVNVVEEDKLFHI 98
>pdb|3Q9L|A Chain A, The Structure Of The Dimeric E.Coli Mind-Atp Complex
pdb|3Q9L|B Chain B, The Structure Of The Dimeric E.Coli Mind-Atp Complex
pdb|3R9I|A Chain A, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|B Chain B, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|C Chain C, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|D Chain D, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9J|A Chain A, 4.3a Resolution Structure Of A Mind-Mine(I24n) Protein
Complex
pdb|3R9J|B Chain B, 4.3a Resolution Structure Of A Mind-Mine(I24n) Protein
Complex
Length = 260
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 43 VSPNPKPSRYR----ILAMTVKRSPKRLKYSAPQFTKEGGLM--YVEADPSGADSWKLEP 96
++ NP+ S R IL + +S + P KE L+ Y S D +E
Sbjct: 141 ITTNPEVSSVRDSDRILGILASKSRRAENGEEP--IKEHLLLTRYNPGRVSRGDMLSMED 198
Query: 97 VVELLKEGAVGVIPTD 112
V+E+L+ VGVIP D
Sbjct: 199 VLEILRIKLVGVIPED 214
>pdb|1WQL|A Chain A, Cumene Dioxygenase (Cuma1a2) From Pseudomonas Fluorescens
Ip01
Length = 459
Score = 25.8 bits (55), Expect = 7.0, Method: Composition-based stats.
Identities = 20/83 (24%), Positives = 32/83 (38%)
Query: 34 APFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWK 93
A G +SS+ P S+ ++ + + K + F + L+ P D W
Sbjct: 239 AHLSGVLSSLPPEMDLSQVKLPSSGNQFRAKWGGHGTGWFNDDFALLQAIMGPKVVDYWT 298
Query: 94 LEPVVELLKEGAVGVIPTDTLYA 116
P E KE V+P D + A
Sbjct: 299 KGPAAERAKERLGKVLPADRMVA 321
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
0.319 0.135 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,744,812
Number of Sequences: 62578
Number of extensions: 142190
Number of successful extensions: 364
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 351
Number of HSP's gapped (non-prelim): 20
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)