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= 039690
         (216 letters)

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

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



>pdb|2D8S|A Chain A, Solution Structure Of The Ring Domain Of The Human
          Cellular Modulator Of Immune Recognition Protein
          Length = 80

 Score = 37.4 bits (85), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 16/41 (39%), Positives = 22/41 (53%)

Query: 1  EEDSIKNLEVPCSCSGSLKYAHRKCVQRWCNEKGDVTCEIC 41
          E D    L  PC C+GSL + H+ C+Q+W        CE+C
Sbjct: 24 EGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELC 64


>pdb|1VYX|A Chain A, Solution Structure Of The Kshv K3 N-Terminal Domain
          Length = 60

 Score = 33.5 bits (75), Expect = 0.092,   Method: Composition-based stats.
 Identities = 11/30 (36%), Positives = 16/30 (53%)

Query: 12 CSCSGSLKYAHRKCVQRWCNEKGDVTCEIC 41
          C C+G L+  HR C+  W     +  C+IC
Sbjct: 24 CGCTGELENVHRSCLSTWLTISRNTACQIC 53


  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
   0.320    0.133    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,974,692
Number of Sequences: 62578
Number of extensions: 137524
Number of successful extensions: 236
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 234
Number of HSP's gapped (non-prelim): 3
length of query: 216
length of database: 14,973,337
effective HSP length: 95
effective length of query: 121
effective length of database: 9,028,427
effective search space: 1092439667
effective search space used: 1092439667
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: 49 (23.5 bits)