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= psy13111
(127 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1ZVF|A Chain A, The Crystal Structure Of 3-Hydroxyanthranilate 3,4-
Dioxygenase From Saccharomyces Cerevisiae
pdb|1ZVF|B Chain B, The Crystal Structure Of 3-Hydroxyanthranilate 3,4-
Dioxygenase From Saccharomyces Cerevisiae
Length = 176
Score = 28.9 bits (63), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 15/67 (22%), Positives = 27/67 (40%)
Query: 59 AFSVPGSSPHSPLKYMKLSYASAPGKLPSSPTRKVRGDSKKCRKVYGMEHRDLWCTQCKW 118
++ +PG+ PHSP+++ P K+R CR+V + +
Sbjct: 89 SYLLPGNVPHSPVRFADTVGIVVEQDRPGGENDKIRWYCSHCRQVVHESELQMLDLGTQV 148
Query: 119 KKACSRF 125
K+A F
Sbjct: 149 KEAILDF 155
>pdb|3DU4|A Chain A, Crystal Structure Of 7-Keto-8-Aminopelargonic Acid Bound
7,8- Diaminopelargonic Acid Synthase In Bacillus
Subtilis
pdb|3DU4|B Chain B, Crystal Structure Of 7-Keto-8-Aminopelargonic Acid Bound
7,8- Diaminopelargonic Acid Synthase In Bacillus
Subtilis
Length = 448
Score = 28.9 bits (63), Expect = 0.88, Method: Composition-based stats.
Identities = 18/79 (22%), Positives = 33/79 (41%), Gaps = 7/79 (8%)
Query: 18 EYQKNLSKP---GLVATAIGQNHSAAGPMPIPKVNNYHQTYSPWAFSVPGSSPHSPLKYM 74
+Y KN+ KP +A G + G + + + +H Y P F S +P+ Y+
Sbjct: 126 QYWKNIGKPEKQKFIAMKNGYHGDTIGAVSVGSIELFHHVYGPLMF----ESYKAPIPYV 181
Query: 75 KLSYASAPGKLPSSPTRKV 93
S + P + R++
Sbjct: 182 YRSESGDPDECRDQXLREL 200
>pdb|3DOD|A Chain A, Crystal Structure Of Plp Bound 7,8-diaminopelargonic Acid
Synthase In Bacillus Subtilis
pdb|3DOD|B Chain B, Crystal Structure Of Plp Bound 7,8-diaminopelargonic Acid
Synthase In Bacillus Subtilis
pdb|3DRD|A Chain A, Crystal Structure Of 7,8 Diaminopelargonic Acid Synthase
Apoenzyme In Bacillus Subtilis
pdb|3DRD|B Chain B, Crystal Structure Of 7,8 Diaminopelargonic Acid Synthase
Apoenzyme In Bacillus Subtilis
Length = 448
Score = 28.5 bits (62), Expect = 0.92, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 18 EYQKNLSKP---GLVATAIGQNHSAAGPMPIPKVNNYHQTYSPWAFSVPGSSPHSPLKYM 74
+Y KN+ KP +A G + G + + + +H Y P F S +P+ Y+
Sbjct: 126 QYWKNIGKPEKQKFIAMKNGYHGDTIGAVSVGSIELFHHVYGPLMF----ESYKAPIPYV 181
Query: 75 KLSYASAP 82
S + P
Sbjct: 182 YRSESGDP 189
>pdb|3QSD|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With Ca074 Inhibitor
pdb|3S3Q|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11017 Inhibitor
pdb|3S3R|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
pdb|3S3R|B Chain B, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
pdb|3S3R|C Chain C, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
Length = 254
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 10 CQNGRVDPEYQKNLSKPGLVATAIGQNHSAAGPMPIPKVNNYHQTYSP 57
C+ G + P + + K G+V + +NH+ P P PK ++ + P
Sbjct: 72 CEGGILGPAWDYWV-KEGIVTGSSKENHAGCEPYPFPKCEHHTKGKYP 118
>pdb|1SU6|A Chain A, Carbon Monoxide Dehydrogenase From Carboxydothermus
Hydrogenoformans: Co Reduced State
pdb|1SU7|A Chain A, Carbon Monoxide Dehydrogenase From Carboxydothermus
Hydrogenoformans- Dtt Reduced State
pdb|1SU8|A Chain A, Carbon Monoxide Induced Decomposition Of The Active Site
[ni-4fe-5s] Cluster Of Co Dehydrogenase
pdb|1SUF|A Chain A, Carbon Monoxide Dehydrogenase From Carboxydothermus
Hydrogenoformans- Inactive State
Length = 636
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 11 QNGRVDPEYQKNLSKPGL--VATAIGQNHSAAGPMP 44
++G +DP L GL V TAIG+ + GP+P
Sbjct: 483 RHGFMDPANVDELCGDGLKAVLTAIGEANGLGGPLP 518
>pdb|3B51|X Chain X, Ni,Fe-Codh-600 Mv State
pdb|3B52|X Chain X, Ni,Fe-Codh-600 Mv State + Co2
pdb|3B53|X Chain X, Ni,Fe-Codh-320 Mv State
pdb|3I39|X Chain X, Ni,Fe-Codh-320 Mv+cn State
pdb|2YIV|X Chain X, Ni,Fe-Codh With N-Butylisocyanate State
Length = 656
Score = 25.8 bits (55), Expect = 6.0, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 11 QNGRVDPEYQKNLSKPGL--VATAIGQNHSAAGPMP 44
++G +DP L GL V TAIG+ + GP+P
Sbjct: 503 RHGFMDPANVDELCGDGLKAVLTAIGEANGLGGPLP 538
>pdb|2WAA|A Chain A, Structure Of A Family Two Carbohydrate Esterase From
Cellvibrio Japonicus
Length = 347
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 17 PEYQKNLSKPGLVATAIGQNHSAAGPMPIPKVNNYHQTYSPWAFSVPGSSPHSPL 71
P++ + +P L+ +AIG N + G IP Y TY+ + ++ + P + +
Sbjct: 217 PQWDHHRYQPDLIISAIGTNDFSPG---IPDRATYINTYTRFVRTLLDNHPQATI 268
>pdb|1T3I|A Chain A, Structure Of Slr0077SUFS, THE ESSENTIAL CYSTEINE
Desulfurase From Synechocystis Pcc 6803
pdb|1T3I|B Chain B, Structure Of Slr0077SUFS, THE ESSENTIAL CYSTEINE
Desulfurase From Synechocystis Pcc 6803
Length = 420
Score = 25.4 bits (54), Expect = 8.1, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 19 YQKNLSKP-GLVATAIGQNHSAAGPMPIPKVNNYHQTYSPWAFSVPGSSPHSPLKYMKL 76
Y +N ++ LVA + G N+ AG I V +H PW + + + LK+++L
Sbjct: 95 YTRNATEAINLVAYSWGMNNLKAGDEIITTVMEHHSNLVPW--QMVAAKTGAVLKFVQL 151
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
0.315 0.129 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,357,884
Number of Sequences: 62578
Number of extensions: 163365
Number of successful extensions: 426
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 407
Number of HSP's gapped (non-prelim): 34
length of query: 127
length of database: 14,973,337
effective HSP length: 87
effective length of query: 40
effective length of database: 9,529,051
effective search space: 381162040
effective search space used: 381162040
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)