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= 017863
         (365 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 = 34.3 bits (77), Expect = 0.11,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 25/65 (38%), Gaps = 13/65 (20%)

Query: 237 PDGERVCRICHL-GSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNR 295
           P  + +CRICH  G ++    T             C C   L   H  C + W K    R
Sbjct: 12  PSSQDICRICHCEGDDESPLITP------------CHCTGSLHFVHQACLQQWIKSSDTR 59

Query: 296 LCEIC 300
            CE+C
Sbjct: 60  CCELC 64


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

 Score = 32.7 bits (73), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 15/32 (46%)

Query: 270 GCGCKDELGVAHSDCAEAWFKLKGNRLCEICG 301
            CGC  EL   H  C   W  +  N  C+ICG
Sbjct: 23  ACGCTGELENVHRSCLSTWLTISRNTACQICG 54


>pdb|1IKN|D Chain D, IkappabalphaNF-Kappab Complex
          Length = 236

 Score = 28.1 bits (61), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 14/27 (51%), Positives = 20/27 (74%), Gaps = 1/27 (3%)

Query: 118 NGRLGLKIDKMVSSGAVVNAPETCNGQ 144
           +G LG+ ++ +VS GA VNA E CNG+
Sbjct: 127 HGYLGI-VELLVSLGADVNAQEPCNGR 152


  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
   0.313    0.130    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,627,362
Number of Sequences: 62578
Number of extensions: 422169
Number of successful extensions: 702
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 697
Number of HSP's gapped (non-prelim): 7
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)