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= psy3389
         (195 letters)

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

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



>pdb|4AM6|A Chain A, C-terminal Domain Of Actin-related Protein Arp8 From S.
           Cerevisiae
 pdb|4AM6|B Chain B, C-terminal Domain Of Actin-related Protein Arp8 From S.
           Cerevisiae
 pdb|4AM7|A Chain A, Adp-bound C-terminal Domain Of Actin-related Protein Arp8
           From S. Cerevisiae
 pdb|4AM7|B Chain B, Adp-bound C-terminal Domain Of Actin-related Protein Arp8
           From S. Cerevisiae
          Length = 655

 Score = 29.3 bits (64), Expect = 1.4,   Method: Composition-based stats.
 Identities = 35/130 (26%), Positives = 55/130 (42%), Gaps = 18/130 (13%)

Query: 13  ITYNLTRQIRD-LSYYKADPRPIIYKADPRPIIYKANPRPIIYKADPRPSTYKADPRPST 71
           I   + +  R+ + YYK   R +   A  + + +  N +P I        + K DP P  
Sbjct: 100 IKSEMEKNFRERMRYYK---RKVPGNAHEQVVSFNENSKPEII-------SEKNDPSPIE 149

Query: 72  YKVDPRPSTYKADPRPSTYKADPRPIIYKADPRPSTYGECSVKSPSPKTLAEFYSIVTFF 131
           +  D     Y +D   +    D + +I K    P   G  +VKSP  K+LAE  S VT  
Sbjct: 150 WIFDDSKLYYGSD---ALRCVDEKFVIRK----PFRGGSFNVKSPYYKSLAELISDVTKL 202

Query: 132 LSSTHHTKFL 141
           L    +++ L
Sbjct: 203 LEHALNSETL 212


  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
   0.319    0.135    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,016,727
Number of Sequences: 62578
Number of extensions: 247896
Number of successful extensions: 475
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 475
Number of HSP's gapped (non-prelim): 2
length of query: 195
length of database: 14,973,337
effective HSP length: 94
effective length of query: 101
effective length of database: 9,091,005
effective search space: 918191505
effective search space used: 918191505
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)