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= 039873
(709 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 125
Score = 33.9 bits (76), Expect = 0.29, Method: Composition-based stats.
Identities = 26/102 (25%), Positives = 43/102 (42%), Gaps = 6/102 (5%)
Query: 508 AWHTLLNASRVHQNYGFGRRIAEYILHMDPNDVGTYILLSNMYAKEKRWDGVSKIRKLMK 567
AW+ L NA +Y + L +DPN+ + L N Y K+ +D I K
Sbjct: 11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYD--EAIEYYQK 68
Query: 568 VRKVKKEPGSSWTEIRNTTHVFISGDSNHPESSQIYEKVREL 609
++ +W + N + GD + E+ + Y+K EL
Sbjct: 69 ALELDPNNAEAWYNLGNA--YYKQGD--YDEAIEYYQKALEL 106
>pdb|2FO7|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
(Trigonal Crystal Form)
pdb|2HYZ|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
(Orthorombic Crystal Form)
Length = 136
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 25/105 (23%), Positives = 42/105 (40%), Gaps = 6/105 (5%)
Query: 508 AWHTLLNASRVHQNYGFGRRIAEYILHMDPNDVGTYILLSNMYAKEKRWDGVSKIRKLMK 567
AW+ L NA +Y + L +DP + L N Y K+ +D I K
Sbjct: 3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYD--EAIEYYQK 60
Query: 568 VRKVKKEPGSSWTEIRNTTHVFISGDSNHPESSQIYEKVRELSAK 612
++ +W + N + GD + E+ + Y+K EL +
Sbjct: 61 ALELDPRSAEAWYNLGNA--YYKQGD--YDEAIEYYQKALELDPR 101
>pdb|3SBP|A Chain A, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|B Chain B, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|C Chain C, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|D Chain D, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|E Chain E, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|F Chain F, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|G Chain G, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBP|H Chain H, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form
pdb|3SBQ|A Chain A, Pseudomonas Stutzeri Nitrous Oxide Reductase, P65 Crystal
Form
pdb|3SBQ|B Chain B, Pseudomonas Stutzeri Nitrous Oxide Reductase, P65 Crystal
Form
pdb|3SBR|A Chain A, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|B Chain B, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|C Chain C, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|D Chain D, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|E Chain E, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|F Chain F, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|G Chain G, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
pdb|3SBR|H Chain H, Pseudomonas Stutzeri Nitrous Oxide Reductase, P1 Crystal
Form With Substrate
Length = 638
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 7/75 (9%)
Query: 533 LHMDPNDVGTYI-LLSNMYAKEKRWDGVSKIRKLMKVRKVKKEPGSSWTEIRNTTHV--- 588
+H+ P ++ Y S + E R GV +R+LM++ + + W + H+
Sbjct: 60 IHVGPGELDDYYGFWSGGHQGEVRVLGVPSMRELMRIPVFNVDSATGWGLTNESRHIMGD 119
Query: 589 ---FISGDSNHPESS 600
F++GD +HP S
Sbjct: 120 SAKFLNGDCHHPHIS 134
>pdb|2WQH|A Chain A, Crystal Structure Of Ctpr3y3
Length = 125
Score = 29.6 bits (65), Expect = 5.7, Method: Composition-based stats.
Identities = 25/102 (24%), Positives = 42/102 (41%), Gaps = 6/102 (5%)
Query: 508 AWHTLLNASRVHQNYGFGRRIAEYILHMDPNDVGTYILLSNMYAKEKRWDGVSKIRKLMK 567
AW+ L NA +Y + L + PN+ + L N Y K+ +D I K
Sbjct: 11 AWYNLGNAYYKQGDYDEAIEYYQKALELYPNNAEAWYNLGNAYYKQGDYD--EAIEYYQK 68
Query: 568 VRKVKKEPGSSWTEIRNTTHVFISGDSNHPESSQIYEKVREL 609
++ +W + N + GD + E+ + Y+K EL
Sbjct: 69 ALELYPNNAEAWYNLGNA--YYKQGD--YDEAIEYYQKALEL 106
>pdb|2Y9Z|A Chain A, Chromatin Remodeling Factor Isw1a(Del_atpase) In Dna
Complex
Length = 374
Score = 28.9 bits (63), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 587 HVFISGDSNHPESSQIYEKVRELSAKIKPLGYVP---DVAAVLHDVED 631
HVF S P+ +YEK R +A K GYVP DV A D+ D
Sbjct: 41 HVFHSHQLQPPQLKVLYEKERMWTA--KKTGYVPTMDDVKAAYGDISD 86
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
0.321 0.136 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,144,211
Number of Sequences: 62578
Number of extensions: 873160
Number of successful extensions: 1906
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1899
Number of HSP's gapped (non-prelim): 13
length of query: 709
length of database: 14,973,337
effective HSP length: 106
effective length of query: 603
effective length of database: 8,340,069
effective search space: 5029061607
effective search space used: 5029061607
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)