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= 003723
         (800 letters)

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

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



>pdb|3RAU|A Chain A, Crystal Structure Of The Hd-Ptp Bro1 Domain
 pdb|3RAU|B Chain B, Crystal Structure Of The Hd-Ptp Bro1 Domain
          Length = 363

 Score = 29.6 bits (65), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 8/86 (9%)

Query: 214 YSVSVCLPYLVASANWILGELASCLPEDISADVYSSLLKA---LQMLDKGDTSCYPVRAS 270
           YSV +    L  + N +LG+   CL E    D   S L A    Q++D    +C  +   
Sbjct: 167 YSVDMSRQILTLNVNLMLGQAQECLLEKSMLDNRKSFLVARISAQVVDYYKEACRALENP 226

Query: 271 AAGAIVGLLENDYMPPEWYPLLQVIV 296
              +++G ++ D     W  L+Q+ +
Sbjct: 227 DTASLLGRIQKD-----WKKLVQMKI 247


  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
   0.319    0.134    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,710,591
Number of Sequences: 62578
Number of extensions: 721676
Number of successful extensions: 1610
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1610
Number of HSP's gapped (non-prelim): 1
length of query: 800
length of database: 14,973,337
effective HSP length: 107
effective length of query: 693
effective length of database: 8,277,491
effective search space: 5736301263
effective search space used: 5736301263
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: 55 (25.8 bits)