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= 041585
         (155 letters)

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

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



>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
          Length = 130

 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 30/95 (31%), Positives = 45/95 (47%), Gaps = 9/95 (9%)

Query: 27  KILTRSDLGHLSRLLVQTRLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLV 86
           K +T SD+G L+RL++    AE++        S   V+ N E +   VW        R  
Sbjct: 16  KAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVW--------RFR 67

Query: 87  FKKWATSNSYVLINHWTADFVRRRELAAGDEIGMC 121
           +  W +S SYVL   W+  FV+ + L AGD +   
Sbjct: 68  YSYWNSSQSYVLTKGWSR-FVKEKNLRAGDVVSFS 101


>pdb|3DHT|B Chain B, The Crystal Structure Determination Of Rat (Rattus
          Norvegicus) Hemoglobin
 pdb|3HF4|B Chain B, Crystal Structure Of Rat Methemoglobin In R2 State
 pdb|3HF4|F Chain F, Crystal Structure Of Rat Methemoglobin In R2 State
          Length = 146

 Score = 28.5 bits (62), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 14/32 (43%), Positives = 19/32 (59%)

Query: 37 LSRLLVQTRLAERYVMPFLDEASRSEVIGNPE 68
          L RLLV     +RY   F D +S S ++GNP+
Sbjct: 28 LGRLLVVYPWTQRYFDSFGDLSSASAIMGNPK 59


  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    0.134    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,371,476
Number of Sequences: 62578
Number of extensions: 157672
Number of successful extensions: 299
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 294
Number of HSP's gapped (non-prelim): 4
length of query: 155
length of database: 14,973,337
effective HSP length: 91
effective length of query: 64
effective length of database: 9,278,739
effective search space: 593839296
effective search space used: 593839296
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: 47 (22.7 bits)