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= psy11502
         (109 letters)

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

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



>pdb|1GL2|C Chain C, Crystal Structure Of An Endosomal Snare Core Complex
          Length = 65

 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 31/47 (65%)

Query: 16 LVRTGESIVRSEQAALEAEAIGTGVISELGVQREALVRARDRLVDTD 62
          + R  +SI RS + A E + IGT +I ELG QR+ L R + RLV+T+
Sbjct: 4  MNRATQSIERSHRIATETDQIGTEIIEELGEQRDQLERTKSRLVNTN 50


>pdb|2NPS|C Chain C, Crystal Structure Of The Early Endosomal Snare Complex
          Length = 81

 Score = 30.8 bits (68), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 24/38 (63%)

Query: 28 QAALEAEAIGTGVISELGVQREALVRARDRLVDTDLHV 65
          Q A+E E IG  ++  L   RE + RAR+RL +TD ++
Sbjct: 26 QIAVETEQIGQEMLENLSHDRERIQRARERLRETDANL 63


  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
   0.324    0.137    0.355 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,956,220
Number of Sequences: 62578
Number of extensions: 48146
Number of successful extensions: 169
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 167
Number of HSP's gapped (non-prelim): 5
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)