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= 030607
(174 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CQN|A Chain A, Crystal Structure Of The Lipocalin Domain Of Violaxanthin
De-Epoxidase (Vde) At Ph7
pdb|3CQN|B Chain B, Crystal Structure Of The Lipocalin Domain Of Violaxanthin
De-Epoxidase (Vde) At Ph7
pdb|3CQR|A Chain A, Crystal Structure Of The Lipocalin Domain Of Violaxanthin
De-Epoxidase (Vde) At Ph5
pdb|3CQR|B Chain B, Crystal Structure Of The Lipocalin Domain Of Violaxanthin
De-Epoxidase (Vde) At Ph5
Length = 185
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 70 DDWPLMKSKWEDGTTPLPEGVIFVEQLKEEDAADDSGGESEITRA 114
DDW ++ SK E+ PE IFV DA D GG TR+
Sbjct: 101 DDWYILSSKIENK----PEDYIFVYYRGRNDAWDGYGGAVVYTRS 141
>pdb|3HPS|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Leua
Complexed With Ketoisocaproate (Kic)
pdb|3HPS|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Leua
Complexed With Ketoisocaproate (Kic)
pdb|3HPZ|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Leua
Complexed With Bromopyruvate
pdb|3HPZ|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Leua
Complexed With Bromopyruvate
pdb|3HQ1|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Leua
Complexed With Citrate And Mn2+
pdb|3HQ1|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Leua
Complexed With Citrate And Mn2+
Length = 644
Score = 28.1 bits (61), Expect = 2.5, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 4/40 (10%)
Query: 93 VEQLKEE-DAADDSGGESEIT---RAWGILVQAKGEGCGP 128
+E++++ DAADD GG + IT + G+ + G G GP
Sbjct: 495 LERIRQHVDAADDDGGTTSITATVKINGVETEISGSGNGP 534
>pdb|3FIG|A Chain A, Crystal Structure Of Leucine-bound Leua From Mycobacterium
Tuberculosis
pdb|3FIG|B Chain B, Crystal Structure Of Leucine-bound Leua From Mycobacterium
Tuberculosis
Length = 646
Score = 28.1 bits (61), Expect = 2.5, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 4/40 (10%)
Query: 93 VEQLKEE-DAADDSGGESEIT---RAWGILVQAKGEGCGP 128
+E++++ DAADD GG + IT + G+ + G G GP
Sbjct: 497 LERIRQHVDAADDDGGTTSITATVKINGVETEISGSGNGP 536
>pdb|1SR9|A Chain A, Crystal Structure Of Leua From Mycobacterium Tuberculosis
pdb|1SR9|B Chain B, Crystal Structure Of Leua From Mycobacterium Tuberculosis
Length = 644
Score = 28.1 bits (61), Expect = 2.8, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 4/40 (10%)
Query: 93 VEQLKEE-DAADDSGGESEIT---RAWGILVQAKGEGCGP 128
+E++++ DAADD GG + IT + G+ + G G GP
Sbjct: 495 LERIRQHVDAADDDGGTTSITATVKINGVETEISGSGNGP 534
>pdb|1B9Y|C Chain C, Structural Analysis Of Phosducin And Its Phosphorylation-
Regulated Interaction With Transducin Beta-Gamma
Length = 246
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 23/52 (44%)
Query: 66 KAVPDDWPLMKSKWEDGTTPLPEGVIFVEQLKEEDAADDSGGESEITRAWGI 117
K V +DW K + EDG + P + Q+ + DD + ++R I
Sbjct: 23 KGVINDWRKFKLESEDGDSIPPSKKEILRQMSSPQSRDDKDSKERMSRKMSI 74
>pdb|1QLE|L Chain L, Cryo-structure Of The Paracoccus Denitrificans
Four-subunit Cytochrome C Oxidase In The Completely
Oxidized State Complexed With An Antibody Fv Fragment
Length = 108
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 51 YSDSGSGDSTRLKTEKAVPDDWPLMKSKWEDGTTPLPEG 89
+S SGSG LK +P+D+ + GT PL G
Sbjct: 62 FSGSGSGTQFSLKINSLLPEDFGSYYCQHHYGTPPLTFG 100
>pdb|1AR1|D Chain D, Structure At 2.7 Angstrom Resolution Of The Paracoccus
Denitrificans Two-Subunit Cytochrome C Oxidase Complexed
With An Antibody Fv Fragment
pdb|1MQK|L Chain L, Crystal Structure Of The Unliganded Fv-Fragment Of The
Anti- Cytochrome C Oxidase Antibody 7e2
pdb|3EHB|D Chain D, A D-Pathway Mutation Decouples The Paracoccus
Denitrificans Cytochrome C Oxidase By Altering The Side
Chain Orientation Of A Distant, Conserved Glutamate
pdb|3HB3|D Chain D, High Resolution Crystal Structure Of Paracoccus
Denitrificans Cytochrome C Oxidase
Length = 120
Score = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 51 YSDSGSGDSTRLKTEKAVPDDWPLMKSKWEDGTTPLPEG 89
+S SGSG LK +P+D+ + GT PL G
Sbjct: 62 FSGSGSGTQFSLKINSLLPEDFGSYYCQHHYGTPPLTFG 100
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
0.315 0.133 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,160,080
Number of Sequences: 62578
Number of extensions: 216517
Number of successful extensions: 494
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 486
Number of HSP's gapped (non-prelim): 14
length of query: 174
length of database: 14,973,337
effective HSP length: 92
effective length of query: 82
effective length of database: 9,216,161
effective search space: 755725202
effective search space used: 755725202
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: 48 (23.1 bits)