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= 025935
(246 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3F6R|A Chain A, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin
pdb|3F6R|B Chain B, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin
pdb|3F6R|C Chain C, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin
pdb|3F6R|D Chain D, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin
pdb|3F6S|A Chain A, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin Alternate Conformers
pdb|3F6S|B Chain B, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin Alternate Conformers
pdb|3F6S|D Chain D, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin Alternate Conformers
pdb|3F6S|E Chain E, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin Alternate Conformers
pdb|3F6S|F Chain F, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin Alternate Conformers
pdb|3F6S|H Chain H, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin Alternate Conformers
pdb|3F6S|I Chain I, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin Alternate Conformers
pdb|3F6S|G Chain G, Desulfovibrio Desulfuricans (Atcc 29577) Oxidized
Flavodoxin Alternate Conformers
pdb|3F90|A Chain A, Desulfovibrio Desulfuricans (Atcc 29577) Semiquinone
Flavodoxin
pdb|3F90|B Chain B, Desulfovibrio Desulfuricans (Atcc 29577) Semiquinone
Flavodoxin
pdb|3F90|D Chain D, Desulfovibrio Desulfuricans (Atcc 29577) Semiquinone
Flavodoxin
pdb|3F90|E Chain E, Desulfovibrio Desulfuricans (Atcc 29577) Semiquinone
Flavodoxin
pdb|3F90|F Chain F, Desulfovibrio Desulfuricans (Atcc 29577) Semiquinone
Flavodoxin
pdb|3F90|H Chain H, Desulfovibrio Desulfuricans (Atcc 29577) Semiquinone
Flavodoxin
pdb|3F90|I Chain I, Desulfovibrio Desulfuricans (Atcc 29577) Semiquinone
Flavodoxin
pdb|3F90|G Chain G, Desulfovibrio Desulfuricans (Atcc 29577) Semiquinone
Flavodoxin
Length = 148
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 39/94 (41%), Gaps = 18/94 (19%)
Query: 3 DLMAKGMKNAQNAVLSGCSAGGLTSILHCDNFRALFP-------VGTKVKCFADAGYFIN 55
D A+ + + +AVL GCSA G+ + D+F +LF G KV FA
Sbjct: 40 DASAENLADGYDAVLFGCSAWGMEDLEMQDDFLSLFEEFDRIGLAGRKVAAFA------- 92
Query: 56 AKDVSGASHIEQFYAQVVATHGSAKHLPASCTSR 89
SG E F V A AK L A+ +
Sbjct: 93 ----SGDQEYEHFCGAVPAIEERAKELGATIIAE 122
>pdb|1AKQ|A Chain A, D95a Oxidized Flavodoxin Mutant From D. Vulgaris
pdb|1AKU|A Chain A, D95a Hydroquinone Flavodoxin Mutant From D. Vulgaris
pdb|1AKV|A Chain A, D95a Semiquinone Flavodoxin Mutant From D. Vulgaris
Length = 147
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 34/89 (38%), Gaps = 18/89 (20%)
Query: 4 LMAKGMKNAQNAVLSGCSAGGLTSILHCDNFRALFPV-------GTKVKCFADAGYFINA 56
+ A G+ + VL GCS G SI D+F LF G KV CF
Sbjct: 40 VEAGGLFEGFDLVLLGCSTWGDDSIELQDDFIPLFDSLEETGAQGRKVACFG-------- 91
Query: 57 KDVSGASHIEQFYAQVVATHGSAKHLPAS 85
GAS E F V A K+L A
Sbjct: 92 ---CGASSYEYFCGAVDAIEEKLKNLGAE 117
>pdb|1OWL|A Chain A, Structure Of Apophotolyase From Anacystis Nidulans
pdb|1OWM|A Chain A, Data1:dna Photolyase RECEIVED X-Rays Dose 1.2 Exp15
PhotonsMM2
pdb|1OWN|A Chain A, Data3:dna Photolyase RECEIVED X-Rays Dose 4.8 Exp15
PhotonsMM2
pdb|1OWO|A Chain A, Data4:photoreduced Dna Photolyase RECEIVED X-Rays Dose
1.2 Exp15 PhotonsMM2
pdb|1OWP|A Chain A, Data6:photoreduced Dna Pholyase RECEIVED X-Rays Dose 4.8
Exp15 PhotonsMM2
pdb|1QNF|A Chain A, Structure Of Photolyase
Length = 484
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 49 DAGYFINAKDVSGASHIEQFYAQVVATHGSAKHLPASC-TSRLSPGLCF 96
D G+ + + + + +++F + +A + ++ PA TS LSP L F
Sbjct: 201 DGGFPVEPGETAAIARLQEFCDRAIADYDPQRNFPAEAGTSGLSPALKF 249
>pdb|1TEZ|A Chain A, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|B Chain B, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|C Chain C, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|D Chain D, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
Length = 474
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 49 DAGYFINAKDVSGASHIEQFYAQVVATHGSAKHLPASC-TSRLSPGLCF 96
D G+ + + + + +++F + +A + ++ PA TS LSP L F
Sbjct: 200 DGGFPVEPGETAAIARLQEFCDRAIADYDPQRNFPAEAGTSGLSPALKF 248
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
0.323 0.134 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,245,368
Number of Sequences: 62578
Number of extensions: 267120
Number of successful extensions: 530
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 529
Number of HSP's gapped (non-prelim): 5
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)