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= 044675
         (168 letters)

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

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



>pdb|2J7Q|C Chain C, Crystal Structure Of The Ubiquitin-Specific Protease
           Encoded By Murine Cytomegalovirus Tegument Protein M48
           In Complex With A Ubquitin-Based Suicide Substrate
          Length = 232

 Score = 27.7 bits (60), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 2/31 (6%)

Query: 138 FARGYVQAR--THNFDPKTGDATVQYNVYVM 166
           F RG + AR  T+ FDP T D + +  VYV 
Sbjct: 141 FTRGVIVARGATYVFDPHTTDLSAEAAVYVC 171


  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
   0.321    0.135    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,853,064
Number of Sequences: 62578
Number of extensions: 190991
Number of successful extensions: 367
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: 367
Number of HSP's gapped (non-prelim): 2
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
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: 48 (23.1 bits)