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= 003454
         (819 letters)

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

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



>pdb|2NVJ|A Chain A, Nmr Structures Of Transmembrane Segment From Subunit A
           From The Yeast Proton V-Atpase
          Length = 25

 Score = 43.5 bits (101), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 19/25 (76%), Positives = 22/25 (88%)

Query: 713 EFVLGAVSNTASYLRLWALSLAHSE 737
           EF L  VS+TASYLRLWALSLAH++
Sbjct: 1   EFCLNCVSHTASYLRLWALSLAHAQ 25


>pdb|2JTW|A Chain A, Solution Structure Of Tm7 Bound To Dpc Micelles
 pdb|2RPW|X Chain X, Structure Of A Peptide Derived From H+-V-Atpase Subunit A
          Length = 25

 Score = 40.0 bits (92), Expect = 0.005,   Method: Composition-based stats.
 Identities = 17/21 (80%), Positives = 21/21 (100%)

Query: 720 SNTASYLRLWALSLAHSELST 740
           S+TASYLRLWALSLAH++LS+
Sbjct: 3   SHTASYLRLWALSLAHAQLSS 23


  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
   0.325    0.139    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,563,636
Number of Sequences: 62578
Number of extensions: 883140
Number of successful extensions: 2277
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 2274
Number of HSP's gapped (non-prelim): 19
length of query: 819
length of database: 14,973,337
effective HSP length: 107
effective length of query: 712
effective length of database: 8,277,491
effective search space: 5893573592
effective search space used: 5893573592
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: 56 (26.2 bits)