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= psy6649
         (242 letters)

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

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



>pdb|3MKB|A Chain A, Crystal Structure Determination Of Shortfin Mako (Isurus
           Oxyrinchus) Hemoglobin At 1.9 Angstrom Resolution
 pdb|3MKB|C Chain C, Crystal Structure Determination Of Shortfin Mako (Isurus
           Oxyrinchus) Hemoglobin At 1.9 Angstrom Resolution
          Length = 140

 Score = 28.5 bits (62), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 16/89 (17%)

Query: 57  SADAVIQQRDYK--RLILSAFEHGDDMHLYYNMVSLILKGRQLEKIYGWGKFLSLVIFLT 114
           +A A +Q    K  R ++SA EH DD+H +  MV  +  G++L         LS  I +T
Sbjct: 50  AAGAKVQLHGGKVIRAVVSAAEHDDDLHAHL-MVLAVTHGKKLLVDPSNFPMLSECILVT 108

Query: 115 VFTSLYYILLAYIVFYITNDTSELSHCAI 143
           + T L              + S  +HCA+
Sbjct: 109 LATHL-------------AEFSPATHCAV 124


  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
   0.326    0.141    0.430 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,312,788
Number of Sequences: 62578
Number of extensions: 234542
Number of successful extensions: 543
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 542
Number of HSP's gapped (non-prelim): 2
length of query: 242
length of database: 14,973,337
effective HSP length: 96
effective length of query: 146
effective length of database: 8,965,849
effective search space: 1309013954
effective search space used: 1309013954
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)