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= 034827
         (82 letters)

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

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



>pdb|2WJQ|A Chain A, Nanc Porin Structure In Hexagonal Crystal Form
          Length = 215

 Score = 26.9 bits (58), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 13  GLGTQMYSNALRKLPYMRHPWEHLLGMGLGAVFVNQLVKWDAQLQQDL 60
           G+ T   SN  R  PY++  W+    +  G   +     W A  QQDL
Sbjct: 74  GMLTHFSSNGTRYGPYVKLSWDATKDLNFG---IRYRYDWKAYRQQDL 118


>pdb|2WJR|A Chain A, Nanc Porin Structure In Rhombohedral Crystal Form
          Length = 214

 Score = 26.9 bits (58), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 13  GLGTQMYSNALRKLPYMRHPWEHLLGMGLGAVFVNQLVKWDAQLQQDL 60
           G+ T   SN  R  PY++  W+    +  G   +     W A  QQDL
Sbjct: 73  GMLTHFSSNGTRYGPYVKLSWDATKDLNFG---IRYRYDWKAYRQQDL 117


  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
   0.324    0.136    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,382,529
Number of Sequences: 62578
Number of extensions: 74670
Number of successful extensions: 204
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 204
Number of HSP's gapped (non-prelim): 2
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
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: 45 (21.9 bits)