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= psy8927
         (1196 letters)

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

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



>pdb|1TVD|A Chain A, Variable Domain Of T Cell Receptor Delta Chain
 pdb|1TVD|B Chain B, Variable Domain Of T Cell Receptor Delta Chain
          Length = 116

 Score = 30.4 bits (67), Expect = 6.4,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 7/70 (10%)

Query: 330 PDFTVASNKCTCQVFLMLGTQDNLFIN---YLSRIHRDEDFQFVLAGFSRLYQDGNRTRG 386
           PD TVAS        ++L T D ++ N   +  RI  D  FQFV  G     +  + T+G
Sbjct: 8   PDQTVASG----SEVVLLCTYDTVYSNPDLFWYRIRPDYSFQFVFYGDDSRSEGADFTQG 63

Query: 387 LALTRHLGTQ 396
               +H+ TQ
Sbjct: 64  RFSVKHILTQ 73


>pdb|3DPU|A Chain A, Roccor Domain Tandem Of Rab Family Protein (Roco)
 pdb|3DPU|B Chain B, Roccor Domain Tandem Of Rab Family Protein (Roco)
          Length = 535

 Score = 30.0 bits (66), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 3/59 (5%)

Query: 1087 TP-TPEWVKSWKDKLPLQTIMRLLQVLVPQVEKICIDKGLTDESEILKFLQHGTLVGLL 1144
            TP  P W+K  +  +   T  R L     +VEKIC D G+TD  E    L +   +G++
Sbjct: 215  TPLAPSWIKVKEKLVEATTAQRYLNRT--EVEKICNDSGITDPGERKTLLGYLNNLGIV 271


>pdb|3DPT|A Chain A, Cor Domain Of Rab Family Protein (Roco)
 pdb|3DPT|B Chain B, Cor Domain Of Rab Family Protein (Roco)
          Length = 332

 Score = 29.6 bits (65), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 3/59 (5%)

Query: 1087 TP-TPEWVKSWKDKLPLQTIMRLLQVLVPQVEKICIDKGLTDESEILKFLQHGTLVGLL 1144
            TP  P W+K  +  +   T  R L     +VEKIC D G+TD  E    L +   +G++
Sbjct: 12   TPLAPSWIKVKEKLVEATTAQRYLNRT--EVEKICNDSGITDPGERKTLLGYLNNLGIV 68


  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
   0.322    0.137    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 33,790,748
Number of Sequences: 62578
Number of extensions: 1369498
Number of successful extensions: 2785
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2783
Number of HSP's gapped (non-prelim): 7
length of query: 1196
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1086
effective length of database: 8,089,757
effective search space: 8785476102
effective search space used: 8785476102
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.6 bits)