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= 018490
         (355 letters)

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

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



>pdb|2P26|A Chain A, Structure Of The Phe2 And Phe3 Fragments Of The Integrin
           Beta2 Subunit
          Length = 280

 Score = 33.9 bits (76), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 52/124 (41%), Gaps = 18/124 (14%)

Query: 47  PIHPTAFNFPTRRFSKVVSALVSEENAVATDVFKLTY--------LEGNSWLWDLDGVKV 98
           P    AFN   RR +K+ S +  + NA+  D  K+TY           N    D DGV++
Sbjct: 87  PGQAAAFNVTFRR-AKLSSRVFLDHNALP-DTLKVTYDSFCSNGVTHRNQPRGDCDGVQI 144

Query: 99  LVDPILVGNLDFGIPWLFDAGKKFLKSFQIVLIGMKTLVQLSDLPQVDCLLITQSLDDH- 157
            V PI           + +      +SF I  +G   +V +  LPQ +C    QS D   
Sbjct: 145 NV-PITFQVKVTATECIQE------QSFVIRALGFTDIVTVQVLPQCECRCRDQSRDRSL 197

Query: 158 CHLK 161
           CH K
Sbjct: 198 CHGK 201


  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
   0.318    0.137    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,356,371
Number of Sequences: 62578
Number of extensions: 421900
Number of successful extensions: 957
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 957
Number of HSP's gapped (non-prelim): 5
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)