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= 006016
(664 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NSQ|A Chain A, Crystal Structure Of The C2 Domain Of The Human E3
Ubiquitin-Protein Ligase Nedd4-Like Protein
Length = 155
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 39/87 (44%), Gaps = 5/87 (5%)
Query: 417 IYGKPDPYVVLSL--GDQIIRSKKNSQTTVFGPPGEPIWNQDFHLLVANPRKQKLYIQVK 474
I+G DPYV LSL D+ R QT P WN++F+ V NP +L +V
Sbjct: 38 IFGASDPYVKLSLYVADE-NRELALVQTKTIKKTLNPKWNEEFYFRV-NPSNHRLLFEVF 95
Query: 475 DSFGFA-DISIGTGEVDLGSLKDTVPT 500
D D +G +V L L PT
Sbjct: 96 DENRLTRDDFLGQVDVPLSHLPTEDPT 122
>pdb|1RLW|A Chain A, Calcium-Phospholipid Binding Domain From Cytosolic
Phospholipase A2
Length = 126
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 421 PDPYVVLSLGDQIIRSKKNSQTTVFGPPGEPIWNQDFHLLVANPRKQKLYIQVKDSFGFA 480
PDPYV L + K+ F P+WN+ F ++ ++ L I + D+
Sbjct: 27 PDPYVELFISTTPDSRKRTRH---FNNDINPVWNETFEFILDPNQENVLEITLMDANYVM 83
Query: 481 DISIGTGEVDLGSLK 495
D ++GT + S+K
Sbjct: 84 DETLGTATFTVSSMK 98
>pdb|1BCI|A Chain A, C2 Domain Of Cytosolic Phospholipase A2, Nmr, Minimized
Average Structure
Length = 138
Score = 33.9 bits (76), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 421 PDPYVVLSLGDQIIRSKKNSQTTVFGPPGEPIWNQDFHLLVANPRKQKLYIQVKDSFGFA 480
PDPYV L + K+ F P+WN+ F ++ ++ L I + D+
Sbjct: 42 PDPYVELFISTTPDSRKRTRH---FNNDINPVWNETFEFILDPNQENVLEITLMDANYVM 98
Query: 481 DISIGTGEVDLGSLK 495
D ++GT + S+K
Sbjct: 99 DETLGTATFTVSSMK 113
>pdb|1CJY|A Chain A, Human Cytosolic Phospholipase A2
pdb|1CJY|B Chain B, Human Cytosolic Phospholipase A2
Length = 749
Score = 33.5 bits (75), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 421 PDPYVVLSLGDQIIRSKKNSQTTVFGPPGEPIWNQDFHLLVANPRKQKLYIQVKDSFGFA 480
PDPYV L + K+ T F P+WN+ F ++ ++ L I + D+
Sbjct: 42 PDPYVELFISTTPDSRKR---TRHFNNDINPVWNETFEFILDPNQENVLEITLMDANYVM 98
Query: 481 DISIGTGEVDLGSLK 495
D ++GT + S+K
Sbjct: 99 DETLGTATFTVSSMK 113
>pdb|2AZN|A Chain A, X-Ray Structure Of
2,5-Diamino-6-Ribosylamino-4(3h)-Pyrimidinone 5-
Phosphate Reductase
pdb|2AZN|B Chain B, X-Ray Structure Of
2,5-Diamino-6-Ribosylamino-4(3h)-Pyrimidinone 5-
Phosphate Reductase
pdb|2AZN|C Chain C, X-Ray Structure Of
2,5-Diamino-6-Ribosylamino-4(3h)-Pyrimidinone 5-
Phosphate Reductase
pdb|2AZN|D Chain D, X-Ray Structure Of
2,5-Diamino-6-Ribosylamino-4(3h)-Pyrimidinone 5-
Phosphate Reductase
pdb|2AZN|E Chain E, X-Ray Structure Of
2,5-Diamino-6-Ribosylamino-4(3h)-Pyrimidinone 5-
Phosphate Reductase
pdb|2AZN|F Chain F, X-Ray Structure Of
2,5-Diamino-6-Ribosylamino-4(3h)-Pyrimidinone 5-
Phosphate Reductase
Length = 219
Score = 31.2 bits (69), Expect = 1.7, Method: Composition-based stats.
Identities = 27/95 (28%), Positives = 43/95 (45%), Gaps = 12/95 (12%)
Query: 447 PPGEPIWNQDFHLLVA-----NPRKQKLYIQVKDSFGFADISIGTGEVDLGSLKDTVPTD 501
P + N+D ++A N K+K I++ + G + G G+VDL L D +
Sbjct: 83 PLNARVLNKDAKTIIATTEDTNEEKEK-KIKILEDXGVEVVKCGRGKVDLKKLXDILYDK 141
Query: 502 RI--VELRGG----WGLFKNGFTGELLLRLTYKAY 530
I + L GG WG FK G E+ + + K +
Sbjct: 142 GIKSILLEGGGTLNWGXFKEGLVDEVSVYIAPKIF 176
>pdb|2YEV|A Chain A, Structure Of Caa3-Type Cytochrome Oxidase
pdb|2YEV|D Chain D, Structure Of Caa3-Type Cytochrome Oxidase
Length = 791
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 272 YTGGARMLLMLSLKFGIIPIAVPVGVRDFDIDGELW 307
+T G L ++ F IAVP GV+ F+I G LW
Sbjct: 302 FTVGESTLFQIAFAFFTALIAVPTGVKLFNIIGTLW 337
>pdb|3M7F|B Chain B, Crystal Structure Of The Nedd4 C2GRB10 SH2 COMPLEX
Length = 176
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 57/138 (41%), Gaps = 14/138 (10%)
Query: 417 IYGKPDPYVVLSLGDQIIRSKKNSQTTVFGPPGEPIWNQDFHLLVANPRKQKLYIQVKDS 476
I G DPYV ++L D + + QT P WN++ L P++ ++ +V D
Sbjct: 25 ILGASDPYVRVTLYDPMSGILTSVQTKTIKKSLNPKWNEEI-LFRVLPQRHRILFEVFDE 83
Query: 477 FGFA-DISIGTGEVDLGSLKDTVP--------TDRIVELRGGWGLFKNGFTGELLLRLTY 527
D +G +V L L P D ++ R K+ G L L++TY
Sbjct: 84 NRLTRDDFLGQVDVPLYPLPTENPRMERPYTFKDFVLHPRS----HKSRVKGYLRLKMTY 139
Query: 528 KAYVEDEEDDTTMAESID 545
E+++ AE ++
Sbjct: 140 LPKNGSEDENADQAEELE 157
>pdb|3B7Y|A Chain A, Crystal Structure Of The C2 Domain Of The E3 Ubiquitin-
Protein Ligase Nedd4
pdb|3B7Y|B Chain B, Crystal Structure Of The C2 Domain Of The E3 Ubiquitin-
Protein Ligase Nedd4
Length = 153
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 417 IYGKPDPYVVLSLGDQIIRSKKNSQTTVFGPPGEPIWNQDFHLLVANPRKQKLYIQVKD 475
I G DPYV ++L D + + QT P WN++ L +P++ +L +V D
Sbjct: 37 ILGASDPYVRVTLYDPMNGVLTSVQTKTIKKSLNPKWNEEI-LFRVHPQQHRLLFEVFD 94
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 0.139 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,028,326
Number of Sequences: 62578
Number of extensions: 761518
Number of successful extensions: 1465
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1461
Number of HSP's gapped (non-prelim): 11
length of query: 664
length of database: 14,973,337
effective HSP length: 105
effective length of query: 559
effective length of database: 8,402,647
effective search space: 4697079673
effective search space used: 4697079673
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)