BLASTP 2.2.18 [Mar-02-2008]


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= 0002.0527.p
         (166 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313440|ref|YP_003777532.1| transmembrane protein [Herbaspi...   179   1e-46

>gi|300313440|ref|YP_003777532.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 188

 Score =  179 bits (453), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 81/108 (75%), Positives = 93/108 (86%)

Query: 24  GRWKLLLVVAVCAAPMIASYLTYYVIKPESRTNYGTLLDPREYPIPPLGSTALDGKPARL 83
           GRWK+L VVAVCAAPMIASYLTYYVIKP+SR NYG L+DPR+YPIP LGS A+DG PA L
Sbjct: 2   GRWKMLAVVAVCAAPMIASYLTYYVIKPQSRNNYGALIDPRQYPIPDLGSRAIDGSPATL 61

Query: 84  EDYKGKWVLLQVSGGECDNACKTRLFAMRQLRLMQGKEMERIERVWXL 131
            DY+GKWV+LQV GG+C   C+ +LF +RQLRLMQGKEMERIERVW +
Sbjct: 62  ADYRGKWVMLQVDGGDCAEPCRQKLFTLRQLRLMQGKEMERIERVWLV 109


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.320    0.134    0.437 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 506,458
Number of extensions: 18432
Number of successful extensions: 52
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 52
Number of HSP's successfully gapped: 1
Length of query: 166
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 88
Effective length of database: 1,250,540
Effective search space: 110047520
Effective search space used: 110047520
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 127 (53.5 bits)