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= 025448
         (252 letters)

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

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



>pdb|3BRW|A Chain A, Structure Of The Rap-Rapgap Complex
 pdb|3BRW|B Chain B, Structure Of The Rap-Rapgap Complex
 pdb|3BRW|C Chain C, Structure Of The Rap-Rapgap Complex
          Length = 341

 Score = 27.3 bits (59), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 31/155 (20%), Positives = 62/155 (40%), Gaps = 37/155 (23%)

Query: 103 YYRLDSLIGN-------DAVSSKKPANITLRVKSKPRTSFVGRSVSTENDNLSSXXXXXX 155
           YY LD+ +G+       D +  ++   + LR K +     +  S  TE  N+        
Sbjct: 28  YYSLDTALGHLVFSLKYDVIGDQEHLRLLLRTKCRTYHDVIPISCLTEFPNVVQ------ 81

Query: 156 XXXXXXIVVKKVHRMEDVDLSDGAACRELARAI-----------LKFGEIYERIESAKQK 204
                  + K V    +VD        + +R I            KFG IY+++ +  ++
Sbjct: 82  -------MAKLVCEDVNVDRFYPVLYPKASRLIVTFDEHVISNNFKFGVIYQKLGATSEE 134

Query: 205 QMMELEKERLEFIKDVECERMNMFMGAQLEIQKSK 239
           ++    +E   F++ +E      F+G ++++Q  K
Sbjct: 135 ELFSTNEESPAFVEFLE------FLGQKVKLQDFK 163


  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
   0.315    0.129    0.371 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,771,941
Number of Sequences: 62578
Number of extensions: 185517
Number of successful extensions: 347
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 1
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)