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= psy4105
(107 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NNE|A Chain A, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|B Chain B, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|C Chain C, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|D Chain D, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|E Chain E, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|F Chain F, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|G Chain G, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|H Chain H, Crystal Structure Of Choline Oxidase S101a Mutant
Length = 546
Score = 43.5 bits (101), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/47 (48%), Positives = 29/47 (61%), Gaps = 2/47 (4%)
Query: 58 RLSEVAHWSVLLLEAGPDENEVTDVPSLAAWLQL--SKFDWQYKTEP 102
RLSE SV L+EAGPD+ V +V L W++L S +DW Y EP
Sbjct: 31 RLSEDPAVSVALVEAGPDDRGVPEVLQLDRWMELLESGYDWDYPIEP 77
>pdb|2JBV|A Chain A, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
pdb|2JBV|B Chain B, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
Length = 546
Score = 43.5 bits (101), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/47 (48%), Positives = 29/47 (61%), Gaps = 2/47 (4%)
Query: 58 RLSEVAHWSVLLLEAGPDENEVTDVPSLAAWLQL--SKFDWQYKTEP 102
RLSE SV L+EAGPD+ V +V L W++L S +DW Y EP
Sbjct: 31 RLSEDPAVSVALVEAGPDDRGVPEVLQLDRWMELLESGYDWDYPIEP 77
>pdb|3LJP|A Chain A, Crystal Structure Of Choline Oxidase V464a Mutant
pdb|3LJP|B Chain B, Crystal Structure Of Choline Oxidase V464a Mutant
Length = 546
Score = 43.5 bits (101), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/47 (48%), Positives = 29/47 (61%), Gaps = 2/47 (4%)
Query: 58 RLSEVAHWSVLLLEAGPDENEVTDVPSLAAWLQL--SKFDWQYKTEP 102
RLSE SV L+EAGPD+ V +V L W++L S +DW Y EP
Sbjct: 31 RLSEDPAVSVALVEAGPDDRGVPEVLQLDRWMELLESGYDWDYPIEP 77
>pdb|3T37|A Chain A, Crystal Structure Of Pyridoxine 4-Oxidase From Mesorbium
Loti
Length = 526
Score = 35.4 bits (80), Expect = 0.008, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 28/46 (60%), Gaps = 3/46 (6%)
Query: 58 RLSEVAHWSVLLLEAGPDENEVTDVPSLAAW--LQLSKFDWQYKTE 101
RLSE VLL+EAG + + D+ + AAW LQ +DW Y+TE
Sbjct: 35 RLSEDPDSRVLLIEAGEEPTD-PDIWNPAAWPALQGRSYDWDYRTE 79
>pdb|3Q9T|A Chain A, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|B Chain B, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|C Chain C, Crystal Structure Analysis Of Formate Oxidase
Length = 577
Score = 35.0 bits (79), Expect = 0.010, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 58 RLSEVAHWSVLLLEAG---PDENEVTDVPSLAAWLQLSKFDWQYKT 100
RL+E + +VL++EAG P++ PS A L+ SK+DW YKT
Sbjct: 24 RLAENPNVTVLIVEAGIGNPEDIPEITTPSSAMDLRNSKYDWAYKT 69
>pdb|3FIM|B Chain B, Crystal Structure Of Aryl-Alcohol-Oxidase From Pleurotus
Eryingii
Length = 566
Score = 29.6 bits (65), Expect = 0.40, Method: Composition-based stats.
Identities = 23/46 (50%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 58 RLSEVAHWSVLLLEAG-PDENEV-TDVPSLAAWL-QLSKFDWQYKT 100
RL+E SVL+LEAG DEN + + P LA L S FDW Y T
Sbjct: 20 RLTEDPDVSVLVLEAGVSDENVLGAEAPLLAPGLVPNSIFDWNYTT 65
>pdb|2VE7|C Chain C, Crystal Structure Of A Bonsai Version Of The Human Ndc80
Complex
pdb|2VE7|D Chain D, Crystal Structure Of A Bonsai Version Of The Human Ndc80
Complex
pdb|3IZ0|D Chain D, Human Ndc80 Bonsai Decorated Microtubule
pdb|3IZ0|F Chain F, Human Ndc80 Bonsai Decorated Microtubule
Length = 250
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 63 AHWSVLL----LEAGPDENEVTDVPSLAA----WLQLSKFDWQYKTEP 102
AH L+ LE DE+ +PS + Q+SK +W+Y+ EP
Sbjct: 163 AHQEALMKLERLEKEVDEDTTVTIPSAVYVAQLYHQVSKIEWEYECEP 210
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 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,200,371
Number of Sequences: 62578
Number of extensions: 100484
Number of successful extensions: 259
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 255
Number of HSP's gapped (non-prelim): 7
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
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: 45 (21.9 bits)