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= 024695
(264 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 = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 7/53 (13%)
Query: 156 DLMAKGMKNAQNAVLSGCSAGGLTSILHCDNFRALFP-------VGTKVKCFA 201
D A+ + + +AVL GCSA G+ + D+F +LF G KV FA
Sbjct: 40 DASAENLADGYDAVLFGCSAWGMEDLEMQDDFLSLFEEFDRIGLAGRKVAAFA 92
>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 = 2.7, 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|1F4P|A Chain A, Y98w Flavodoxin Mutant 1.5a (D. Vulgaris)
Length = 147
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
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-------GTKVKCF 200
+F LF G KV CF
Sbjct: 69 DFIPLFDSLEETGAQGRKVACF 90
>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 = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
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-------GTKVKCF 200
+F LF G KV CF
Sbjct: 69 DFIPLFDSLEETGAQGRKVACF 90
>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 = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
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-------GTKVKCF 200
+F LF G KV CF
Sbjct: 69 DFIPLFDSLEETGAQGRKVACF 90
>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 = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
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-------GTKVKCF 200
+F LF G KV CF
Sbjct: 69 DFIPLFDSLEETGAQGRKVACF 90
>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 = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
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-------GTKVKCF 200
+F LF G KV CF
Sbjct: 69 DFIPLFDSLEETGAQGRKVACF 90
>pdb|1I1O|A Chain A, Room Temperature Crystal Structure Flavodoxin D. Vulgaris
Mutant Y98h At 2.0 Ang. Resolution
Length = 147
Score = 27.3 bits (59), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
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-------GTKVKCF 200
+F LF G KV CF
Sbjct: 69 DFIPLFDSLEETGAQGRKVACF 90
>pdb|1FX1|A Chain A, A Crystallographic Structural Study Of The Oxidation
States Of Desulfovibrio Vulgaris Flavodoxin
Length = 148
Score = 27.3 bits (59), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
Query: 128 SFTGDVE--AVNPANNLHFRGARVFQAVMEDLMAKGMKNAQNAVLSGCSAGGLTSILHCD 185
S TG+ E A A L G V + A G+ + VL GCS G SI D
Sbjct: 10 STTGNTEYTAETIARQLANAGYEVDSRDAASVEAGGLFEGFDLVLLGCSTWGDDSIELQD 69
Query: 186 NFRALFPV-------GTKVKCF 200
+F LF G KV CF
Sbjct: 70 DFIPLFDSLEETGAQGRKVACF 91
>pdb|3A64|A Chain A, Crystal Structure Of Cccel6c, A Glycoside Hydrolase Family
6 Enzyme, From Coprinopsis Cinerea
pdb|3A9B|A Chain A, Cccel6c, A Glycoside Hydrolase Family 6 Enzyme, Complexed
With Cellobiose
pdb|3ABX|A Chain A, Cccel6c, A Glycoside Hydrolase Family 6 Enzyme, Complexed
With P-Nitrophenyl Beta-D-Cellotrioside
Length = 395
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 71 GWCNNVTTCLERKKTRLGSSKQMVKVVAFSGMLSNKQKFNP-------DFYNWN 117
GW +N+ E K L ++Q+ G+ N +NP D+ WN
Sbjct: 200 GWNDNLRPSAEIFKETLDLARQITPNATVRGLAINVSNYNPYKTRAREDYTEWN 253
>pdb|3VOF|A Chain A, Cellobiohydrolase Mutant, Cccel6c D102a, In The Closed
Form
Length = 395
Score = 27.3 bits (59), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 71 GWCNNVTTCLERKKTRLGSSKQMVKVVAFSGMLSNKQKFNP-------DFYNWN 117
GW +N+ E K L ++Q+ G+ N +NP D+ WN
Sbjct: 200 GWNDNLRPSAEIFKETLDLARQITPNATVRGLAINVSNYNPYKTRAREDYTEWN 253
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
0.326 0.138 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,886,250
Number of Sequences: 62578
Number of extensions: 319738
Number of successful extensions: 795
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 793
Number of HSP's gapped (non-prelim): 11
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)