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= psy17151
         (86 letters)

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

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



>pdb|1UFX|A Chain A, Solution Structure Of The Third Pdz Domain Of Human
          Kiaa1526 Protein
          Length = 103

 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 20/31 (64%), Positives = 24/31 (77%)

Query: 17 ITVKKSRPLLGMAIEGGANTKHPLPRIINIH 47
          + VKKS   LG+AIEGGANT+ PLPRI+ I 
Sbjct: 10 VRVKKSAATLGIAIEGGANTRQPLPRIVTIQ 40


>pdb|3DIN|C Chain C, Crystal Structure Of The Protein-Translocation Complex
           Formed By The Secy Channel And The Seca Atpase
 pdb|3DIN|F Chain F, Crystal Structure Of The Protein-Translocation Complex
           Formed By The Secy Channel And The Seca Atpase
          Length = 431

 Score = 26.9 bits (58), Expect = 3.0,   Method: Composition-based stats.
 Identities = 11/29 (37%), Positives = 19/29 (65%)

Query: 12  QGQLRITVKKSRPLLGMAIEGGANTKHPL 40
           Q + RIT++ +R + G  + GGA+T  P+
Sbjct: 235 QAERRITIQYARRVTGRRVYGGASTYLPI 263


  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
   0.314    0.130    0.354 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,215,773
Number of Sequences: 62578
Number of extensions: 72115
Number of successful extensions: 80
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 78
Number of HSP's gapped (non-prelim): 2
length of query: 86
length of database: 14,973,337
effective HSP length: 54
effective length of query: 32
effective length of database: 11,594,125
effective search space: 371012000
effective search space used: 371012000
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)