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= 019996
         (332 letters)

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

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



>pdb|4A2L|A Chain A, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2L|B Chain B, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2L|C Chain C, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2L|D Chain D, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2L|E Chain E, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2L|F Chain F, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2M|A Chain A, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2M|B Chain B, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2M|C Chain C, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
 pdb|4A2M|D Chain D, Structure Of The Periplasmic Domain Of The Heparin And
           Heparan Sulphate Sensing Hybrid Two Component System
           Bt4663 In Apo And Ligand Bound Forms
          Length = 795

 Score = 28.5 bits (62), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 17/37 (45%), Positives = 20/37 (54%)

Query: 117 VRDILELREGNRALGTFAVSVKYKDPTRSFTGREKYK 153
           V  IL   EGN  LGT +  V++    RSFT  EK K
Sbjct: 454 VYAILPDGEGNLWLGTLSALVRFNPEQRSFTTIEKEK 490


  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
   0.316    0.131    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,791,954
Number of Sequences: 62578
Number of extensions: 275596
Number of successful extensions: 683
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 681
Number of HSP's gapped (non-prelim): 4
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)