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= psy10969
(204 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OF3|A Chain A, Tog Domain Structure From C.Elegans Zyg9
Length = 266
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 58 LQVTPMIEIALTQISSYAQSNGLVIAGYYLANENI---KDVSYDKPYQSRIADK 108
L++TPM+ AL ++ +S L++ YY+ N I K +S +K + DK
Sbjct: 166 LKMTPMLLDALKSKNARQRSECLLVIEYYITNAGISPLKSLSVEKTVAPFVGDK 219
>pdb|2VVJ|A Chain A, Irisfp Fluorescent Protein In Its Red Form, Cis
Conformation
pdb|2VVJ|B Chain B, Irisfp Fluorescent Protein In Its Red Form, Cis
Conformation
pdb|2VVJ|C Chain C, Irisfp Fluorescent Protein In Its Red Form, Cis
Conformation
pdb|2VVJ|D Chain D, Irisfp Fluorescent Protein In Its Red Form, Cis
Conformation
Length = 226
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 46/105 (43%), Gaps = 22/105 (20%)
Query: 8 DRAYCKMILHAVKYPHCSINGVLLAVTVPTTKESPKKLTYVDAIPLFHLCLQVTPMIEIA 67
D Y K+ H V +P NG ++ + S +K+ D + +T I +A
Sbjct: 112 DTFYNKVRFHGVNFP---ANGPVMQKKTLKWEPSTEKMYVRDGV--------LTGDITMA 160
Query: 68 L-----------TQISSYAQSNGLVIAGYYLANENIKDVSYDKPY 101
L ++ + A+ G+ + GY+L + I+ +S+DK Y
Sbjct: 161 LLLEGNAHYRCDSRTTYKAKEKGVKLPGYHLVDHCIEILSHDKDY 205
>pdb|2VVH|A Chain A, Irisfp Fluorescent Protein In Its Green Form, Cis
Conformation
pdb|2VVH|B Chain B, Irisfp Fluorescent Protein In Its Green Form, Cis
Conformation
pdb|2VVH|C Chain C, Irisfp Fluorescent Protein In Its Green Form, Cis
Conformation
pdb|2VVH|D Chain D, Irisfp Fluorescent Protein In Its Green Form, Cis
Conformation
pdb|2VVI|A Chain A, Irisfp Fluorescent Protein In Its Green Form, Trans
Conformation
pdb|2VVI|B Chain B, Irisfp Fluorescent Protein In Its Green Form, Trans
Conformation
pdb|2VVI|C Chain C, Irisfp Fluorescent Protein In Its Green Form, Trans
Conformation
pdb|2VVI|D Chain D, Irisfp Fluorescent Protein In Its Green Form, Trans
Conformation
Length = 226
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 46/105 (43%), Gaps = 22/105 (20%)
Query: 8 DRAYCKMILHAVKYPHCSINGVLLAVTVPTTKESPKKLTYVDAIPLFHLCLQVTPMIEIA 67
D Y K+ H V +P NG ++ + S +K+ D + +T I +A
Sbjct: 112 DTFYNKVRFHGVNFP---ANGPVMQKKTLKWEPSTEKMYVRDGV--------LTGDITMA 160
Query: 68 L-----------TQISSYAQSNGLVIAGYYLANENIKDVSYDKPY 101
L ++ + A+ G+ + GY+L + I+ +S+DK Y
Sbjct: 161 LLLEGNAHYRCDSRTTYKAKEKGVKLPGYHLVDHCIEILSHDKDY 205
>pdb|3TMR|A Chain A, Irisfp, Planar Chromophore
pdb|3TMR|B Chain B, Irisfp, Planar Chromophore
pdb|3TMR|C Chain C, Irisfp, Planar Chromophore
pdb|3TMR|D Chain D, Irisfp, Planar Chromophore
pdb|3TMT|A Chain A, Irisfp, Distorted Chromophore
pdb|3TMT|B Chain B, Irisfp, Distorted Chromophore
pdb|3TMT|C Chain C, Irisfp, Distorted Chromophore
pdb|3TMT|D Chain D, Irisfp, Distorted Chromophore
Length = 230
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 46/105 (43%), Gaps = 22/105 (20%)
Query: 8 DRAYCKMILHAVKYPHCSINGVLLAVTVPTTKESPKKLTYVDAIPLFHLCLQVTPMIEIA 67
D Y K+ H V +P NG ++ + S +K+ D + +T I +A
Sbjct: 116 DTFYNKVRFHGVNFP---ANGPVMQKKTLKWEPSTEKMYVRDGV--------LTGDITMA 164
Query: 68 L-----------TQISSYAQSNGLVIAGYYLANENIKDVSYDKPY 101
L ++ + A+ G+ + GY+L + I+ +S+DK Y
Sbjct: 165 LLLEGNAHYRCDSRTTYKAKEKGVKLPGYHLVDHCIEILSHDKDY 209
>pdb|1ZCH|A Chain A, Structure Of The Hypothetical Oxidoreductase Ycnd From
Bacillus Subtilis
Length = 255
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 13/89 (14%)
Query: 5 SFTDRAYCK----MILHAVKYPHCSINGVLLAVTVPTTKESPKKLT-------YVDAIPL 53
S+TD + I+ AV+ SING + V KE KK++ ++D P+
Sbjct: 16 SYTDEPVAQEQLDQIIEAVQSAPSSINGQQVTVITVQDKERKKKISELAGGQPWIDQAPV 75
Query: 54 FHLCLQVTPMIEIALTQISSYAQ--SNGL 80
F L +IAL + + +NGL
Sbjct: 76 FLLFCADFNRAKIALEDLHDFKMEITNGL 104
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
0.318 0.131 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,531,857
Number of Sequences: 62578
Number of extensions: 197290
Number of successful extensions: 451
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 447
Number of HSP's gapped (non-prelim): 11
length of query: 204
length of database: 14,973,337
effective HSP length: 94
effective length of query: 110
effective length of database: 9,091,005
effective search space: 1000010550
effective search space used: 1000010550
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)