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= 040608
(314 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NLL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57a Oxidized
Length = 138
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 95 VNIEKELLLRFIVMGRKSLPDPREKSRPYWGFVEMVTTKVEDVKVALAGEEYDTSTRGHR 154
VNI++ L +++G ++ D + + F+E ++TK+ KVAL G Y
Sbjct: 38 VNIDELLNEDILILGCSAMADEVLEESEFEPFIEEISTKISGKKVALFG-SYGWGDGKWM 96
Query: 155 RNLPARAVGEGVYRI 169
R+ R G G +
Sbjct: 97 RDFEERMNGYGCVVV 111
>pdb|1FLD|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t Oxidized
pdb|2FLV|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t Reduced
(150k)
pdb|2FVX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t Reduced
(277k)
pdb|5NUL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t
Semiquinone (150k)
Length = 138
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 95 VNIEKELLLRFIVMGRKSLPDPREKSRPYWGFVEMVTTKVEDVKVALAGEEYDTSTRGHR 154
VNI++ L +++G ++ D + + F+E ++TK+ KVAL G Y
Sbjct: 38 VNIDELLNEDILILGCSAMTDEVLEESEFEPFIEEISTKISGKKVALFG-SYGWGDGKWM 96
Query: 155 RNLPARAVGEGVYRI 169
R+ R G G +
Sbjct: 97 RDFEERMNGYGCVVV 111
>pdb|2EE1|A Chain A, Solution Structures Of The Chromo Domain Of Human
Chromodomain Helicase-Dna-Binding Protein 4
Length = 64
Score = 28.5 bits (62), Expect = 5.4, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 166 VYRILRHSPGKKMHTHLIYKLEFPPEDMENETQESLNIE 204
++RIL HS KK H H + K P D + E + I+
Sbjct: 14 IHRILNHSVDKKGHVHYLIKWRDLPYDQASWESEDVEIQ 52
>pdb|1FLA|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57d Reduced
pdb|4NLL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57d Oxidized
Length = 138
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 95 VNIEKELLLRFIVMGRKSLPDPREKSRPYWGFVEMVTTKVEDVKVALAGEEYDTSTRGHR 154
VNI++ L +++G ++ D + + F+E ++TK+ KVAL G Y
Sbjct: 38 VNIDELLNEDILILGCSAMDDEVLEESEFEPFIEEISTKISGKKVALFG-SYGWGDGKWM 96
Query: 155 RNLPARAVGEGVYRI 169
R+ R G G +
Sbjct: 97 RDFEERMNGYGCVVV 111
>pdb|1FVX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57n Oxidized
Length = 138
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 95 VNIEKELLLRFIVMGRKSLPDPREKSRPYWGFVEMVTTKVEDVKVALAGEEYDTSTRGHR 154
VNI++ L +++G ++ D + + F+E ++TK+ KVAL G Y
Sbjct: 38 VNIDELLNEDILILGCSAMNDEVLEESEFEPFIEEISTKISGKKVALFG-SYGWGDGKWM 96
Query: 155 RNLPARAVGEGVYRI 169
R+ R G G +
Sbjct: 97 RDFEERMNGYGCVVV 111
>pdb|2FOX|A Chain A, Clostridium Beijerinckii Flavodoxin: Semiquinone
pdb|5NLL|A Chain A, Clostridium Beijerinckii Flavodoxin: Oxidized
pdb|5ULL|A Chain A, Clostridium Beijerinckii Flavodoxin: Reduced
Length = 138
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 95 VNIEKELLLRFIVMGRKSLPDPREKSRPYWGFVEMVTTKVEDVKVALAGEEYDTSTRGHR 154
VNI++ L +++G ++ D + + F+E ++TK+ KVAL G Y
Sbjct: 38 VNIDELLNEDILILGCSAMGDEVLEESEFEPFIEEISTKISGKKVALFG-SYGWGDGKWM 96
Query: 155 RNLPARAVGEGVYRI 169
R+ R G G +
Sbjct: 97 RDFEERMNGYGCVVV 111
>pdb|2FAX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: N137a Oxidized
(150k)
pdb|2FDX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant N137a Oxidized
pdb|6NUL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: N137a Reduced
(150k)
Length = 138
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 95 VNIEKELLLRFIVMGRKSLPDPREKSRPYWGFVEMVTTKVEDVKVALAGEEYDTSTRGHR 154
VNI++ L +++G ++ D + + F+E ++TK+ KVAL G Y
Sbjct: 38 VNIDELLNEDILILGCSAMGDEVLEESEFEPFIEEISTKISGKKVALFG-SYGWGDGKWM 96
Query: 155 RNLPARAVGEGVYRI 169
R+ R G G +
Sbjct: 97 RDFEERMNGYGCVVV 111
>pdb|3H8D|A Chain A, Crystal Structure Of Myosin Vi In Complex With Dab2
Peptide
pdb|3H8D|B Chain B, Crystal Structure Of Myosin Vi In Complex With Dab2
Peptide
pdb|3H8D|C Chain C, Crystal Structure Of Myosin Vi In Complex With Dab2
Peptide
pdb|3H8D|D Chain D, Crystal Structure Of Myosin Vi In Complex With Dab2
Peptide
Length = 141
Score = 27.3 bits (59), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 15/86 (17%)
Query: 198 QESLNIEHEGSFLIQIKKPDQHGTSQFRGLQNKRKAVFPAHLQGQF--GQKRYCPADPPD 255
Q+ ++++ + F + P Q++ QNK+K + AH G + Q P PP
Sbjct: 5 QQEIDMKRQQRFF---RIPFIRPADQYKDPQNKKKGWWYAHFDGPWIARQMELHPDKPP- 60
Query: 256 FLNYEGCEFLLISASDDIEE-ELGLE 280
LL++ DD+E EL LE
Sbjct: 61 --------ILLVAGKDDMEMCELNLE 78
>pdb|2KIA|A Chain A, Solution Structure Of Myosin Vi C-Terminal Cargo-Binding
Domain
Length = 129
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 40/93 (43%), Gaps = 20/93 (21%)
Query: 198 QESLNIEHEGSFLIQIKKPDQHGTSQFRGLQNKRKAVFPAHLQGQF--GQKRYCPADPPD 255
Q+ ++++ + F + P Q++ QNK+K + AH G + Q P PP
Sbjct: 3 QQEIDMKRQQRFF---RIPFIRPADQYKDPQNKKKGWWYAHFDGPWIARQMELHPDKPP- 58
Query: 256 FLNYEGCEFLLISASDDIE------EELGLELK 282
LL++ DD+E EE GL K
Sbjct: 59 --------ILLVAGKDDMEMCEKNLEETGLTRK 83
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
0.316 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,754,346
Number of Sequences: 62578
Number of extensions: 344202
Number of successful extensions: 782
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 775
Number of HSP's gapped (non-prelim): 16
length of query: 314
length of database: 14,973,337
effective HSP length: 99
effective length of query: 215
effective length of database: 8,778,115
effective search space: 1887294725
effective search space used: 1887294725
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: 51 (24.3 bits)