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= 048821
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GP5|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Trans-Dihydroquercetin
pdb|1GP6|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Trans-Dihydroquercetin (With 30 Min Exposure To O2)
Length = 356
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 40/131 (30%), Positives = 67/131 (51%), Gaps = 12/131 (9%)
Query: 26 VKGLVDSGIQSVPKFFVAPSEE--TCNE--KSDLRHAHFNVPIIDLRDIDKD--GVRCEI 79
V+ L SGI S+PK ++ P EE + N+ + + VP IDL++I+ D +R
Sbjct: 7 VESLAKSGIISIPKEYIRPKEELESINDVFLEEKKEDGPQVPTIDLKNIESDDEKIRENC 66
Query: 80 VKEIGIASSKWGFFQVVNHDIPQDIADEVIESIRRFNEQPNHVKEKFYSRDKTKKVRFNS 139
++E+ AS WG ++NH IP D+ + V ++ F KEK+ + T K++
Sbjct: 67 IEELKKASLDWGVMHLINHGIPADLMERVKKAGEEFFSLSVEEKEKYANDQATGKIQG-- 124
Query: 140 NFDLYKARFAN 150
Y ++ AN
Sbjct: 125 ----YGSKLAN 131
>pdb|2BRT|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Naringenin
Length = 355
Score = 57.4 bits (137), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 40/131 (30%), Positives = 67/131 (51%), Gaps = 12/131 (9%)
Query: 26 VKGLVDSGIQSVPKFFVAPSEE--TCNE--KSDLRHAHFNVPIIDLRDIDKD--GVRCEI 79
V+ L SGI S+PK ++ P EE + N+ + + VP IDL++I+ D +R
Sbjct: 6 VESLAKSGIISIPKEYIRPKEELESINDVFLEEKKEDGPQVPTIDLKNIESDDEKIRENC 65
Query: 80 VKEIGIASSKWGFFQVVNHDIPQDIADEVIESIRRFNEQPNHVKEKFYSRDKTKKVRFNS 139
++E+ AS WG ++NH IP D+ + V ++ F KEK+ + T K++
Sbjct: 66 IEELKKASLDWGVMHLINHGIPADLMERVKKAGEEFFSLSVEEKEKYANDQATGKIQG-- 123
Query: 140 NFDLYKARFAN 150
Y ++ AN
Sbjct: 124 ----YGSKLAN 130
>pdb|1GP4|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana
(Selenomethionine Substituted)
Length = 356
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 40/131 (30%), Positives = 67/131 (51%), Gaps = 12/131 (9%)
Query: 26 VKGLVDSGIQSVPKFFVAPSEE--TCNE--KSDLRHAHFNVPIIDLRDIDKD--GVRCEI 79
V+ L SGI S+PK ++ P EE + N+ + + VP IDL++I+ D +R
Sbjct: 7 VESLAKSGIISIPKEYIRPKEELESINDVFLEEKKEDGPQVPTIDLKNIESDDEKIRENC 66
Query: 80 VKEIGIASSKWGFFQVVNHDIPQDIADEVIESIRRFNEQPNHVKEKFYSRDKTKKVRFNS 139
++E+ AS WG ++NH IP D+ + V ++ F KEK+ + T K++
Sbjct: 67 IEELKKASLDWGVXHLINHGIPADLXERVKKAGEEFFSLSVEEKEKYANDQATGKIQG-- 124
Query: 140 NFDLYKARFAN 150
Y ++ AN
Sbjct: 125 ----YGSKLAN 131
>pdb|1W9Y|A Chain A, The Structure Of Acc Oxidase
pdb|1WA6|X Chain X, The Structure Of Acc Oxidase
Length = 319
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 29/49 (59%), Gaps = 3/49 (6%)
Query: 61 NVPIIDLRDIDKDGV-RCEIVKEIGIASSKWGFFQVVNHDIPQDIADEV 108
N PII L ++ GV R + I A WGFF++VNH IP+++ D V
Sbjct: 3 NFPIISLDKVN--GVERAATXEXIKDACENWGFFELVNHGIPREVXDTV 49
>pdb|1IPS|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Manganese Complex)
pdb|1IPS|B Chain B, Isopenicillin N Synthase From Aspergillus Nidulans
(Manganese Complex)
pdb|1QJE|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Ip1 -
Fe Complex)
pdb|1QJF|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Monocyclic Sulfoxide - Fe Complex)
pdb|1QIQ|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Acmc
Fe Complex)
pdb|1HB4|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Oxygen
Exposed Product From Anaerobic Acov Fe Complex)
pdb|1HB3|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Oxygen
Exposed Product From Anaerobic Acov Fe Complex)
pdb|1HB2|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Oxygen
Exposed Product From Anaerobic Acov Fe Complex)
pdb|1HB1|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Anaerobic Acov Fe Complex)
pdb|1ODM|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(anaerobic Ac-vinylglycine Fe Complex)
pdb|1ODN|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Oxygen-Exposed Product From Anaerobic Ac-Vinylglycine
Fe Complex)
pdb|1OBN|A Chain A, Isopenicillin N Synthase
Aminoadipoyl-cysteinyl-aminobutyrate-fe-no Complex
pdb|1OC1|A Chain A, Isopenicillin N Synthase
Aminoadipoyl-cysteinyl-aminobutyrate-fe Complex
pdb|1UZW|A Chain A, Isopenicillin N Synthase With
L-D-(A-Aminoadipoyl)-L-Cysteinyl-D-Isodehydrovaline
pdb|1W03|A Chain A, Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Glycine-Fe
Complex
pdb|1W04|A Chain A, Isopenicillin N Synthase
Aminoadipoyl-Cysteinyl-Glycine-Fe-No Complex
pdb|1W05|A Chain A, Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Alanine-Fe
Complex
pdb|1W06|A Chain A, Isopenicillin N Synthase Aminoadipoyl-Cysteinyl-Alanine-Fe
No Complex
pdb|2BU9|A Chain A, Isopenicillin N Synthase Complexed With L-Aminoadipoyl-L-
Cysteinyl-L-Hexafluorovaline
pdb|1W3V|A Chain A, Isopenicillin N Synthase
D-(L-A-Aminoadipoyl)-(3r)-Methyl-L- Cysteine
D-A-Hydroxyisovaleryl Ester Complex (Anaerobic)
pdb|1W3X|A Chain A, Isopenicillin N Synthase
D-(L-A-Aminoadipoyl)-(3r)-Methyl-L- Cysteine
D-A-Hydroxyisovaleryl Ester Complex (Oxygen Exposed 5
Minutes 20 Bar)
pdb|2IVI|B Chain B, Isopenicillin N Synthase From Aspergillus Nidulans
(anaerobic Ac-methyl-cyclopropylglycine Fe Complex)
pdb|2IVJ|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Anaerobic Ac-Cyclopropylglycine Fe Complex)
pdb|1BK0|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans (Acv-Fe
Complex)
pdb|1BLZ|A Chain A, Isopenicillin N Synthase From Aspergillus Nidulans
(Acv-Fe- No Complex)
pdb|2JB4|A Chain A, Isopenicillin N Synthase With A 2-Thiabicycloheptan-6-One
Product Analogue
pdb|2VAU|A Chain A, Isopenicillin N Synthase With Substrate Analogue Acomp (
Unexposed)
pdb|2VBB|A Chain A, Isopenicillin N Synthase With Substrate Analogue Acomp (
35minutes Oxygen Exposure)
pdb|2VBD|A Chain A, Isopenicillin N Synthase With Substrate Analogue L,l,l-
Acomp (unexposed)
pdb|2VBP|A Chain A, Isopenicillin N Synthase With Substrate Analogue
L,L,L-Acab (Unexposed)
pdb|2VCM|A Chain A, Isopenicillin N Synthase With Substrate Analogue Asmcov
pdb|2VE1|A Chain A, Isopenicillin N Synthase With Substrate Analogue Asmcov (
Oxygen Exposed 1min 20bar)
pdb|2WO7|A Chain A, Isopenicillin N Synthase With Substrate Analogue L,L,D-
Acd2ab (Unexposed)
pdb|2Y6F|A Chain A, Isopenicillin N Synthase With
Ac-D-S-Methyl-3r-Methylcysteine
pdb|2Y60|A Chain A, Isopenicillin N Synthase With Ac-D-Methionine
pdb|2Y86|A Chain A, Isopenicillin N Synthase With Ac-O-Methyl-D-Threonine
pdb|3ZKU|A Chain A, Isopenicillin N Synthase With Substrate Analogue Ahcv
Length = 331
Score = 31.2 bits (69), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 61 NVPIIDLRDI--DKDGVRCEIVKEIGIASSKWGFFQVVNHDI 100
NVP ID+ + D + + ++I AS GFF VNH I
Sbjct: 8 NVPKIDVSPLFGDDQAAKMRVAQQIDAASRDTGFFYAVNHGI 49
>pdb|2BJS|A Chain A, Isopenicillin N Synthase C-Terminal Truncation Mutant
Length = 325
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 61 NVPIIDLRDI--DKDGVRCEIVKEIGIASSKWGFFQVVNHDI 100
NVP ID+ + D + + ++I AS GFF VNH I
Sbjct: 8 NVPKIDVSPLFGDDQAAKMRVAQQIDAASRDTGFFYAVNHGI 49
>pdb|3ID5|C Chain C, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|G Chain G, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|C Chain C, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|D Chain D, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|L Chain L, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 130
Score = 30.0 bits (66), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 3/32 (9%)
Query: 86 ASSKWGFFQVVNHDIPQDIADEVIESIRRFNE 117
A SK + V ++PQD+AD+V+E++R+ E
Sbjct: 3 AMSKASY---VKFEVPQDLADKVLEAVRKAKE 31
>pdb|4B6M|A Chain A, Trypansoma Brucei Tubulin Binding Cofactor B Cap-Gly
Domain
pdb|4B6M|B Chain B, Trypansoma Brucei Tubulin Binding Cofactor B Cap-Gly
Domain
Length = 84
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 58 AHFNVPIIDLRDIDKDGVRCEIVKEIG-IASSKWGFFQVVNHDIPQDIADEVIESIRRFN 116
H + R + + G R V+ +G +AS K G++ V D P D ++ R F
Sbjct: 1 GHMETIHVGDRCLCRPGDRLGSVRFVGRVASLKPGYWVGVEFDEPVGKGDGTVKGTRVFQ 60
Query: 117 EQPNH 121
QPN+
Sbjct: 61 CQPNY 65
>pdb|3P8C|B Chain B, Structure And Control Of The Actin Regulatory Wave Complex
Length = 1128
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 51/108 (47%), Gaps = 20/108 (18%)
Query: 17 KAFDDTKAGVKGLVDSGIQSVPKFFVA--PSEETCN----------EKSDLRH--AHFNV 62
KA D KA L+D ++S KF V P+ ET N EKS++ A +
Sbjct: 36 KACGDPKAKPSYLIDKNLESAVKFIVRKFPAVETRNNNQQLAQLQKEKSEILKNLALYYF 95
Query: 63 PIIDLRDIDKDGVRCEIVKEIGIASSKWGFFQV-VNHDIPQDIADEVI 109
+D+ + KD V CE++ I + FF + VN D+ ++ D +I
Sbjct: 96 TFVDVMEF-KDHV-CELLNTIDVCQV---FFDITVNFDLTKNYLDLII 138
>pdb|3QYF|A Chain A, Crystal Structure Of The Crispr-Associated Protein Sso1393
From Sulfolobus Solfataricus
pdb|3QYF|B Chain B, Crystal Structure Of The Crispr-Associated Protein Sso1393
From Sulfolobus Solfataricus
Length = 324
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 6/51 (11%)
Query: 72 KDGVRCEIVKEIGIASSKWGFFQVVNHDIPQDIADEVIESIRRFNEQPNHV 122
++G+R E+V + SS+ F++ + D+ D+VI I +F EQ N V
Sbjct: 118 EEGIRSELVT-VKTISSEENFYEGI-----VDLFDKVIYRILKFKEQDNEV 162
>pdb|4DLP|A Chain A, Crystal Structure Of Methionyl-Trna Synthetase Metrs From
Brucella Melitensis Bound To Selenomethionine
pdb|4DLP|B Chain B, Crystal Structure Of Methionyl-Trna Synthetase Metrs From
Brucella Melitensis Bound To Selenomethionine
pdb|4DLP|C Chain C, Crystal Structure Of Methionyl-Trna Synthetase Metrs From
Brucella Melitensis Bound To Selenomethionine
Length = 536
Score = 26.9 bits (58), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 8/59 (13%)
Query: 101 PQDIADEVIESIRRFNEQPNHV--------KEKFYSRDKTKKVRFNSNFDLYKARFANW 151
P+D+AD + RR E N +E+ Y + +N D+YK +A W
Sbjct: 89 PRDLADRNTSAFRRMAEVLNSSNDDYIRTSEERHYKASQAIWQAMVANGDIYKGGYAGW 147
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
0.321 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,529,388
Number of Sequences: 62578
Number of extensions: 223871
Number of successful extensions: 537
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 526
Number of HSP's gapped (non-prelim): 17
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)