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= 039195
         (195 letters)

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

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



>pdb|3EMO|C Chain C, Crystal Structure Of Transmembrane Hia 973-1098
 pdb|3EMO|A Chain A, Crystal Structure Of Transmembrane Hia 973-1098
 pdb|3EMO|B Chain B, Crystal Structure Of Transmembrane Hia 973-1098
          Length = 162

 Score = 30.0 bits (66), Expect = 0.89,   Method: Compositional matrix adjust.
 Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 1/32 (3%)

Query: 29  TVSPLSVSQLPQKPFSGKVELVFICPRSYQSK 60
           T S L+ SQLPQ    GK  +V I   SYQ +
Sbjct: 92  TASALAASQLPQATMPGK-SMVAIAGSSYQGQ 122


>pdb|2GR7|A Chain A, Hia 992-1098
 pdb|2GR7|B Chain B, Hia 992-1098
 pdb|2GR7|C Chain C, Hia 992-1098
 pdb|2GR7|D Chain D, Hia 992-1098
 pdb|2GR7|E Chain E, Hia 992-1098
 pdb|2GR7|F Chain F, Hia 992-1098
          Length = 129

 Score = 28.9 bits (63), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 3/41 (7%)

Query: 29 TVSPLSVSQLPQKPFSGKVELVFICPRSYQSKGDKGYSVCC 69
          T S L+ SQLPQ    GK  +V I   SYQ  G  G ++  
Sbjct: 59 TASALAASQLPQATMPGK-SMVAIAGSSYQ--GQNGLAIGV 96


>pdb|2GR8|A Chain A, Hia 1022-1098
 pdb|2GR8|B Chain B, Hia 1022-1098
 pdb|2GR8|C Chain C, Hia 1022-1098
 pdb|2GR8|D Chain D, Hia 1022-1098
 pdb|2GR8|E Chain E, Hia 1022-1098
 pdb|2GR8|F Chain F, Hia 1022-1098
          Length = 99

 Score = 28.5 bits (62), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 3/41 (7%)

Query: 29 TVSPLSVSQLPQKPFSGKVELVFICPRSYQSKGDKGYSVCC 69
          T S L+ SQLPQ    GK  +V I   SYQ  G  G ++  
Sbjct: 29 TASALAASQLPQATMPGK-SMVAIAGSSYQ--GQNGLAIGV 66


  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
   0.323    0.137    0.446 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,731,599
Number of Sequences: 62578
Number of extensions: 201759
Number of successful extensions: 347
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 3
length of query: 195
length of database: 14,973,337
effective HSP length: 94
effective length of query: 101
effective length of database: 9,091,005
effective search space: 918191505
effective search space used: 918191505
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)