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= 039784
         (88 letters)

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

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



>pdb|2I75|A Chain A, Crystal Structure Of Human Protein Tyrosine Phosphatase N4
           (Ptpn4)
          Length = 320

 Score = 26.2 bits (56), Expect = 4.3,   Method: Composition-based stats.
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 27  SDFCDSKCAVRCSKAGREDRCLKYC 51
           SDF D  C VR  +AG+E+  + +C
Sbjct: 220 SDFLDFVCHVRNKRAGKEEPVVVHC 244


  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
   0.324    0.139    0.499 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,255,052
Number of Sequences: 62578
Number of extensions: 80383
Number of successful extensions: 293
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 291
Number of HSP's gapped (non-prelim): 16
length of query: 88
length of database: 14,973,337
effective HSP length: 56
effective length of query: 32
effective length of database: 11,468,969
effective search space: 367007008
effective search space used: 367007008
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 45 (21.9 bits)