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= 010780
         (501 letters)

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

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



>pdb|1ES0|A Chain A, Crystal Structure Of The Murine Class Ii Allele I-A(G7)
           Complexed With The Glutamic Acid Decarboxylase (Gad65)
           Peptide 207-220
 pdb|3CUP|A Chain A, Crystal Structure Of The Mhc Class Ii Molecule I-Ag7 In
           Complex With The Peptide Gad221-235
 pdb|3MBE|A Chain A, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
 pdb|3MBE|E Chain E, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
          Length = 190

 Score = 29.6 bits (65), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 28  PKTMICFIVLVSLPYVFYSLILLYSSDTPN-HEPVIRIHRQHSRNKVLVPTHVPSSDDTE 86
           P T+ICF+  +  P +  + +    S T   +E    ++R HS +K+   T +PS DD  
Sbjct: 106 PNTLICFVDNIFPPVINITWLRNSKSVTDGVYETSFLVNRDHSFHKLSYLTFIPSDDDIY 165

Query: 87  D 87
           D
Sbjct: 166 D 166


>pdb|1F3J|A Chain A, Histocompatibility Antigen I-Ag7
 pdb|1F3J|D Chain D, Histocompatibility Antigen I-Ag7
          Length = 182

 Score = 29.6 bits (65), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 28  PKTMICFIVLVSLPYVFYSLILLYSSDTPN-HEPVIRIHRQHSRNKVLVPTHVPSSDDTE 86
           P T+ICF+  +  P +  + +    S T   +E    ++R HS +K+   T +PS DD  
Sbjct: 103 PNTLICFVDNIFPPVINITWLRNSKSVTDGVYETSFLVNRDHSFHKLSYLTFIPSDDDIY 162

Query: 87  D 87
           D
Sbjct: 163 D 163


>pdb|1IAO|A Chain A, Class Ii Mhc I-Ad In Complex With Ovalbumin Peptide
           323-339
 pdb|2IAD|A Chain A, Class Ii Mhc I-ad In Complex With An Influenza
           Hemagglutinin Peptide 126-138
          Length = 194

 Score = 29.6 bits (65), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 28  PKTMICFIVLVSLPYVFYSLILLYSSDTPN-HEPVIRIHRQHSRNKVLVPTHVPSSDDTE 86
           P T+ICF+  +  P +  + +    S T   +E    ++R HS +K+   T +PS DD  
Sbjct: 106 PNTLICFVDNIFPPVINITWLRNSKSVTDGVYETSFLVNRDHSFHKLSYLTFIPSDDDIY 165

Query: 87  D 87
           D
Sbjct: 166 D 166


  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    0.137    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,562,015
Number of Sequences: 62578
Number of extensions: 637042
Number of successful extensions: 1289
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1288
Number of HSP's gapped (non-prelim): 14
length of query: 501
length of database: 14,973,337
effective HSP length: 103
effective length of query: 398
effective length of database: 8,527,803
effective search space: 3394065594
effective search space used: 3394065594
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: 53 (25.0 bits)