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= 015845
(399 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 = 0.041, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 39/94 (41%), Gaps = 18/94 (19%)
Query: 156 DLMAKGMKNAQNAVLSGCSAGGLTSILHCDNFRALFP-------VGTKVKCFADAGYFIN 208
D A+ + + +AVL GCSA G+ + D+F +LF G KV FA
Sbjct: 40 DASAENLADGYDAVLFGCSAWGMEDLEMQDDFLSLFEEFDRIGLAGRKVAAFA------- 92
Query: 209 AKDVSGASHIEQFYAQVVATHGSAKHLPASCTSR 242
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 = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 38/120 (31%), Positives = 44/120 (36%), Gaps = 20/120 (16%)
Query: 128 SFTGDVE--AVNPANNLHFRGARVFQAVMEDLMAKGMKNAQNAVLSGCSAGGLTSILHCD 185
S TG+ E A A L G V + A G+ + VL GCS G SI D
Sbjct: 9 STTGNTEYTAETIARELADAGYEVDSRDAASVEAGGLFEGFDLVLLGCSTWGDDSIELQD 68
Query: 186 NFRALFPV-------GTKVKCFADAGYFINAKDVSGASHIEQFYAQVVATHGSAKHLPAS 238
+F LF G KV CF GAS E F V A K+L A
Sbjct: 69 DFIPLFDSLEETGAQGRKVACFG-----------CGASSYEYFCGAVDAIEEKLKNLGAE 117
>pdb|2HYX|A Chain A, Structure Of The C-Terminal Domain Of Dipz From
Mycobacterium Tuberculosis
pdb|2HYX|B Chain B, Structure Of The C-Terminal Domain Of Dipz From
Mycobacterium Tuberculosis
pdb|2HYX|C Chain C, Structure Of The C-Terminal Domain Of Dipz From
Mycobacterium Tuberculosis
pdb|2HYX|D Chain D, Structure Of The C-Terminal Domain Of Dipz From
Mycobacterium Tuberculosis
Length = 352
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 139 ANNLHFRGARVFQAVMEDLMAKGMKNAQNAVLSGCSAG 176
+ NL+F+ + + E L G+ NAQNA LS CS G
Sbjct: 12 SENLYFQSGAM--EIREQLNLGGIVNAQNAQLSNCSDG 47
>pdb|1C7E|A Chain A, D95e Hydroquinone Flavodoxin Mutant From D. Vulgaris
pdb|1C7E|B Chain B, D95e Hydroquinone Flavodoxin Mutant From D. Vulgaris
pdb|1C7F|A Chain A, D95e Oxidized Flavodoxin Mutant From D. Vulgaris
pdb|1C7F|B Chain B, D95e Oxidized Flavodoxin Mutant From D. Vulgaris
Length = 147
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 37/121 (30%), Positives = 43/121 (35%), Gaps = 20/121 (16%)
Query: 127 ASFTGDVE--AVNPANNLHFRGARVFQAVMEDLMAKGMKNAQNAVLSGCSAGGLTSILHC 184
S TG+ E A A L G V + A G+ + VL GCS G SI
Sbjct: 8 GSTTGNTEYTAETIARELADAGYEVDSRDAASVEAGGLFEGFDLVLLGCSTWGDDSIELQ 67
Query: 185 DNFRALFPV-------GTKVKCFADAGYFINAKDVSGASHIEQFYAQVVATHGSAKHLPA 237
D+F LF G KV CF G S E F V A K+L A
Sbjct: 68 DDFIPLFDSLEETGAQGRKVACFG-----------CGESSYEYFCGAVDAIEEKLKNLGA 116
Query: 238 S 238
Sbjct: 117 E 117
>pdb|1BU5|A Chain A, X-Ray Crystal Structure Of The Desulfovibrio Vulgaris
(Hildenborough) Apoflavodoxin-Riboflavin Complex
pdb|1BU5|B Chain B, X-Ray Crystal Structure Of The Desulfovibrio Vulgaris
(Hildenborough) Apoflavodoxin-Riboflavin Complex
Length = 147
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 37/121 (30%), Positives = 43/121 (35%), Gaps = 20/121 (16%)
Query: 127 ASFTGDVE--AVNPANNLHFRGARVFQAVMEDLMAKGMKNAQNAVLSGCSAGGLTSILHC 184
S TG+ E A A L G V + A G+ + VL GCS G SI
Sbjct: 8 GSTTGNTEYTAETIARELADAGYEVDSRDAASVEAGGLFEGFDLVLLGCSTWGDDSIELQ 67
Query: 185 DNFRALFPV-------GTKVKCFADAGYFINAKDVSGASHIEQFYAQVVATHGSAKHLPA 237
D+F LF G KV CF G S E F V A K+L A
Sbjct: 68 DDFIPLFDSLEETGAQGRKVACFG-----------CGDSSYEYFCGAVDAIEEKLKNLGA 116
Query: 238 S 238
Sbjct: 117 E 117
>pdb|1J8Q|A Chain A, Low Temperature (100k) Crystal Structure Of Flavodoxin D.
Vulgaris Wild-Type At 1.35 Angstrom Resolution
pdb|2FX2|A Chain A, Comparison Of The Crystal Structures Of A Flavodoxin In
Its Three Oxidation States At Cryogenic Temperatures
pdb|3FX2|A Chain A, Comparison Of The Crystal Structures Of A Flavodoxin In
Its Three Oxidation States At Cryogenic Temperatures
pdb|4FX2|A Chain A, Comparison Of The Crystal Structures Of A Flavodoxin In
Its Three Oxidation States At Cryogenic Temperatures
pdb|5FX2|A Chain A, Comparison Of The Crystal Structures Of A Flavodoxin In
Its Three Oxidation States At Cryogenic Temperatures
Length = 147
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 43/120 (35%), Gaps = 20/120 (16%)
Query: 128 SFTGDVE--AVNPANNLHFRGARVFQAVMEDLMAKGMKNAQNAVLSGCSAGGLTSILHCD 185
S TG+ E A A L G V + A G+ + VL GCS G SI D
Sbjct: 9 STTGNTEYTAETIARELADAGYEVDSRDAASVEAGGLFEGFDLVLLGCSTWGDDSIELQD 68
Query: 186 NFRALFPV-------GTKVKCFADAGYFINAKDVSGASHIEQFYAQVVATHGSAKHLPAS 238
+F LF G KV CF G S E F V A K+L A
Sbjct: 69 DFIPLFDSLEETGAQGRKVACFG-----------CGDSSYEYFCGAVDAIEEKLKNLGAE 117
>pdb|1FX1|A Chain A, A Crystallographic Structural Study Of The Oxidation
States Of Desulfovibrio Vulgaris Flavodoxin
Length = 148
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 37/121 (30%), Positives = 43/121 (35%), Gaps = 20/121 (16%)
Query: 127 ASFTGDVE--AVNPANNLHFRGARVFQAVMEDLMAKGMKNAQNAVLSGCSAGGLTSILHC 184
S TG+ E A A L G V + A G+ + VL GCS G SI
Sbjct: 9 GSTTGNTEYTAETIARQLANAGYEVDSRDAASVEAGGLFEGFDLVLLGCSTWGDDSIELQ 68
Query: 185 DNFRALFPV-------GTKVKCFADAGYFINAKDVSGASHIEQFYAQVVATHGSAKHLPA 237
D+F LF G KV CF G S E F V A K+L A
Sbjct: 69 DDFIPLFDSLEETGAQGRKVACFG-----------CGDSSYEYFCGAVDAIEEKLKNLGA 117
Query: 238 S 238
Sbjct: 118 E 118
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 0.135 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,167,528
Number of Sequences: 62578
Number of extensions: 485888
Number of successful extensions: 959
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 958
Number of HSP's gapped (non-prelim): 7
length of query: 399
length of database: 14,973,337
effective HSP length: 101
effective length of query: 298
effective length of database: 8,652,959
effective search space: 2578581782
effective search space used: 2578581782
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)