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= 025390
(253 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X9R|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
Oxidised Form
pdb|1X9R|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
Oxidised Form
pdb|1X9U|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
Reduced Form
pdb|1X9U|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
Reduced Form
Length = 116
Score = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 52/104 (50%), Gaps = 2/104 (1%)
Query: 67 REFLIGGKGNWGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYASGQDSVLQVNKDAYTNCS 126
++ +GG W P+D Y WA F++GD + F +A+G V V KDA+ NC
Sbjct: 2 EDYDVGGDMEWKRPSDPKF--YITWATGKTFRVGDELEFDFAAGMHDVAVVTKDAFDNCK 59
Query: 127 TEYPVARYTDGHTVFTFKQSGPYYFISGNKDNCVNNEKLAVIVL 170
E P++ T +GP Y+I D+C +KL++ V+
Sbjct: 60 KENPISHMTTPPVKIMLNTTGPQYYICTVGDHCRVGQKLSINVV 103
>pdb|1WS7|A Chain A, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|B Chain B, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|C Chain C, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS7|D Chain D, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (Zucchini)
pdb|1WS8|A Chain A, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|B Chain B, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|C Chain C, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
pdb|1WS8|D Chain D, Crystal Structure Of Mavicyanin From Cucurbita Pepo
Medullosa (zucchini)
Length = 109
Score = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 55/95 (57%), Gaps = 3/95 (3%)
Query: 78 GTPTDNTTL---NYNQWAEKNRFQIGDSIVFKYASGQDSVLQVNKDAYTNCSTEYPVARY 134
G T TTL +Y +WA N+F +GDS++F Y + +VLQV+++ + +C++ P A Y
Sbjct: 8 GDSTGWTTLVPYDYAKWASSNKFHVGDSLLFNYNNKFHNVLQVDQEQFKSCNSSSPAASY 67
Query: 135 TDGHTVFTFKQSGPYYFISGNKDNCVNNEKLAVIV 169
T G K+ G +YF+ G +C +K+ + V
Sbjct: 68 TSGADSIPLKRPGTFYFLCGIPGHCQLGQKVEIKV 102
>pdb|2CBP|A Chain A, Cucumber Basic Protein, A Blue Copper Protein
Length = 96
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 47/102 (46%), Gaps = 8/102 (7%)
Query: 69 FLIGGKGNWGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYASGQDSVLQVNKDAYTNCSTE 128
+++GG G W T N W + RF+ GD ++F Y +V+ VN+ ++ C+T
Sbjct: 3 YVVGGSGGW-------TFNTESWPKGKRFRAGDILLFNYNPSMHNVVVVNQGGFSTCNTP 55
Query: 129 YPVARYTDGHTVFTFKQSGPYYFISGNKDNCVNNEKLAVIVL 170
YT G + G YFI +C + K+AV L
Sbjct: 56 AGAKVYTSGRDQIKLPK-GQSYFICNFPGHCQSGMKIAVNAL 96
>pdb|1F56|A Chain A, Spinach Plantacyanin
pdb|1F56|B Chain B, Spinach Plantacyanin
pdb|1F56|C Chain C, Spinach Plantacyanin
Length = 91
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 92 AEKNRFQIGDSIVFKYASGQDSVLQVNKDAYTNCSTEYPVARYTDGHTVFTFKQSGPYYF 151
A F+ GD +VFKY GQ +V+ VN Y +CS Y+ G + G YF
Sbjct: 14 ARGKSFRAGDVLVFKYIKGQHNVVAVNGRGYASCSAPRGARTYSSGQDRIKLTR-GQNYF 72
Query: 152 ISGNKDNCVNNEKLAV 167
I +C K+A+
Sbjct: 73 ICSFPGHCGGGMKIAI 88
>pdb|1JER|A Chain A, Cucumber Stellacyanin, Cu2+, Ph 7.0
Length = 138
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 53/106 (50%), Gaps = 8/106 (7%)
Query: 70 LIGGKGNWGTPTDNTTLNYNQWAEKNRFQIGDSIVFKYASGQDSVLQVN-KDAYTNC--- 125
++G W P+ Y+QWA F++GDS+ F + + +V ++ K ++ C
Sbjct: 7 IVGDNTGWSVPSSPNF--YSQWAAGKTFRVGDSLQFNFPANAHNVHEMETKQSFDACNFV 64
Query: 126 STEYPVARYTDGHTVFTFKQSGPYYFISGNKDNCVNNEKLAVIVLA 171
+++ V R + + + G +YF+ +C N +KL++ V+A
Sbjct: 65 NSDNDVERTSP--VIERLDELGMHYFVCTVGTHCSNGQKLSINVVA 108
>pdb|2XKJ|E Chain E, Crystal Structure Of Catalytic Core Of A. Baumannii Topo
Iv (Pare-Parc Fusion Truncate)
Length = 767
Score = 32.0 bits (71), Expect = 0.30, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 57 LVLLMQKSEAREFLIGGKGNWGTPTDNTTLNYNQWAE 93
+VL+ Q R LI G+GNWG+P D + ++ E
Sbjct: 354 MVLMAQPFSYRYPLIEGQGNWGSPDDPKSFAAMRYTE 390
>pdb|2XKK|A Chain A, Crystal Structure Of Moxifloxacin, Dna, And A. Baumannii
Topo Iv (Pare-Parc Fusion Truncate)
pdb|2XKK|C Chain C, Crystal Structure Of Moxifloxacin, Dna, And A. Baumannii
Topo Iv (Pare-Parc Fusion Truncate)
Length = 767
Score = 31.6 bits (70), Expect = 0.48, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 57 LVLLMQKSEAREFLIGGKGNWGTPTD 82
+VL+ Q R LI G+GNWG+P D
Sbjct: 354 MVLMAQPFSYRYPLIEGQGNWGSPDD 379
>pdb|1ZVU|A Chain A, Structure Of The Full-Length E. Coli Parc Subunit
Length = 716
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 56 CLVLLMQKSEAREFLIGGKGNWGTPTDNTTLNYNQWAE 93
+VL+ Q R L+ G+GNWG P D + ++ E
Sbjct: 59 AMVLMAQPFSYRYPLVDGQGNWGAPDDPKSFAAMRYTE 96
>pdb|4I6M|B Chain B, Structure Of Arp7-arp9-snf2(hsa)-rtt102 Subcomplex Of
Swi/snf Chromatin Remodeler
Length = 439
Score = 30.4 bits (67), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 8/60 (13%)
Query: 101 DSIVFKYASGQDSVLQ--VNKDAYTNCSTEYPVARYTDGHTVFTFKQSGPYYFISGNKDN 158
DSI+ Y Q +++Q +N++ +T E P Y T +Q G Y + S NKDN
Sbjct: 7 DSILIIYPRSQTTLVQFGLNEETFTVPELEIPTQIYR------TTRQDGSYTYHSTNKDN 60
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
0.319 0.134 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,671,142
Number of Sequences: 62578
Number of extensions: 215147
Number of successful extensions: 458
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 449
Number of HSP's gapped (non-prelim): 9
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)