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= psy66
         (164 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Xylose
 pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Glucose
 pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To
           6-Bromo-6-Deoxy-D-Glucose
          Length = 491

 Score = 29.3 bits (64), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 31/134 (23%), Positives = 52/134 (38%), Gaps = 25/134 (18%)

Query: 7   VYVSEISLPAYRGLFASLGPVFVSLGVLFVYYAGYML------------HWQIVCYFCAA 54
           +Y++E++    RG   S     +  G L VY   Y +             W+    +  A
Sbjct: 149 MYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDASWLNTDGWR----YMFA 204

Query: 55  TACIS---FIIVTF-MPETPAWYASKGLVVKSSASLNWLRNSSAIANAEIADILQSISER 110
           + CI    F+++ + +PE+P W  S+G   K   +   LR    + N      +Q I   
Sbjct: 205 SECIPALLFLMLLYTVPESPRWLMSRG---KQEQAEGILRK--IMGNTLATQAVQEIKHS 259

Query: 111 EDDKKSCGQTLREF 124
            D  +  G  L  F
Sbjct: 260 LDHGRKTGGRLLMF 273


>pdb|4AQ7|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
           Trna(Leu) And Leucyl-Adenylate Analogue In The
           Aminoacylation Conformation
 pdb|4AQ7|D Chain D, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
           Trna(Leu) And Leucyl-Adenylate Analogue In The
           Aminoacylation Conformation
 pdb|4ARC|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
           Trna(Leu) And Leucine In The Editing Conformation
 pdb|4ARI|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
           Trna(Leu) And The Benzoxaborole An2679 In The Editing
           Conformation
 pdb|4AS1|A Chain A, Ternary Complex Of E. Coli Leucyl-Trna Synthetase,
           Trna(Leu) And The Benzoxaborole An2679 In The Editing
           Conformation
 pdb|3ZGZ|A Chain A, Ternary Complex Of E. Coli Leucyl-trna Synthetase,
           Trna(leu) And Toxic Moiety From Agrocin 84 (tm84) In
           Aminoacylation- Like Conformation
 pdb|3ZGZ|D Chain D, Ternary Complex Of E. Coli Leucyl-trna Synthetase,
           Trna(leu) And Toxic Moiety From Agrocin 84 (tm84) In
           Aminoacylation- Like Conformation
          Length = 880

 Score = 26.9 bits (58), Expect = 5.7,   Method: Composition-based stats.
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 8/49 (16%)

Query: 62  IVTFMPETPAWYAS-------KGLVVKSSASLNWLRN-SSAIANAEIAD 102
           + T  PE   W          KGLV K ++++NW  N  + +AN ++ D
Sbjct: 145 LATCTPEYYRWEQKFFTELYKKGLVYKKTSAVNWCPNDQTVLANEQVID 193


  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
   0.325    0.135    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,271,348
Number of Sequences: 62578
Number of extensions: 138907
Number of successful extensions: 411
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 409
Number of HSP's gapped (non-prelim): 5
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)