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= 0001.1012.p
         (128 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310544|ref|YP_003774636.1| membrane protein [Herbaspirillu...   197   3e-52

>gi|300310544|ref|YP_003774636.1| membrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 126

 Score =  197 bits (500), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 99/109 (90%), Positives = 104/109 (95%)

Query: 1   MKERTLIAAGALNMFMAVGCGAFGAHGLKKMISEEMLAIWHTAVTYQVMHALGMIAIALL 60
           MKERTLIA GALNMF+AVGCGAFGAHGLKKMISEEMLAIWHTAVTYQVMHALGMIA+ALL
Sbjct: 1   MKERTLIALGALNMFIAVGCGAFGAHGLKKMISEEMLAIWHTAVTYQVMHALGMIAVALL 60

Query: 61  MPRMNGAALRWAGALMLAGIVIFSGSLYLLALTGTRILGAITPLGGVAF 109
           MPR+ GAALRWAG LMLAGIV+FSGSLYLLALTGTR+LGAITP GGV F
Sbjct: 61  MPRLGGAALRWAGVLMLAGIVVFSGSLYLLALTGTRMLGAITPFGGVGF 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
   0.329    0.138    0.426 

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: 336,739
Number of extensions: 12003
Number of successful extensions: 98
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 98
Number of HSP's successfully gapped: 1
Length of query: 128
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 53
Effective length of database: 1,264,745
Effective search space: 67031485
Effective search space used: 67031485
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 125 (52.8 bits)