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= psy2691
         (181 letters)

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

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



>pdb|3MKQ|B Chain B, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
           Of The Copi Vesicular Coat
 pdb|3MKQ|D Chain D, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
           Of The Copi Vesicular Coat
 pdb|3MKQ|F Chain F, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
           Of The Copi Vesicular Coat
          Length = 177

 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 41/129 (31%), Positives = 57/129 (44%), Gaps = 1/129 (0%)

Query: 2   QGNHQIVEMCYQRTKNFDKLAFLYLITGNLEKLKKMMKIAEIRRDISGQYQAALLLGEVG 61
           QGN  + EM YQ   +FDKL+FLYL+TG++ KL KM  IA+ R D               
Sbjct: 47  QGNASLAEMIYQTQHSFDKLSFLYLVTGDVNKLSKMQNIAQTREDFGSMLLNTFYNNSTK 106

Query: 62  ERIKILKSCGQTSLAYLTAATHGXXXXXXXXXXNLRTADPNATLPTVHPEAQLLRPPAPV 121
           ER  I    G   LAY  A  +G               + + TLP     +  ++ P  +
Sbjct: 107 ERSSIFAEGGSLPLAYAVAKANGDEAAASAFLEQAEVDEQDVTLPDQMDASNFVQRPV-I 165

Query: 122 AEAETNWPL 130
           ++    WPL
Sbjct: 166 SKPLEKWPL 174


  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    0.132    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,541,470
Number of Sequences: 62578
Number of extensions: 104646
Number of successful extensions: 260
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 259
Number of HSP's gapped (non-prelim): 1
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)