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= 0064.0002.p
         (327 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309895|ref|YP_003773987.1| methionine synthase II protein ...    58   1e-09

>gi|300309895|ref|YP_003773987.1| methionine synthase II protein
           [Herbaspirillum seropedicae SmR1]
          Length = 342

 Score = 57.8 bits (138), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/136 (27%), Positives = 64/136 (47%), Gaps = 7/136 (5%)

Query: 168 PTTTIGSFPQTAEIRHARSEFKAGRLHTAAYKTAMQAEIERSVREQETLGLDVLVHGEAE 227
           PT+T GS P+ A +      +   +L  A  + A +  +  S++EQ+  G+D++  GE  
Sbjct: 6   PTSTAGSLPKPAWLAEPEKLWSPWKLQGAELEDAKRDALRLSLQEQQHAGIDIVSDGEQT 65

Query: 228 RNDMVEYFGEQLQGYAFSQFGWVQSYGSRCVKPPVLFGDISRPRAMTVEWITYAQSLTAK 287
           R   V  F E L G  F++   V+         P + G +SRP+ + V+   + +S T +
Sbjct: 66  RQHFVTTFIEHLDGVDFAKRETVRIRNRYDASVPTVVGAVSRPKPVFVDDARFLRSQTDQ 125

Query: 288 PMKXQQKSRLWTLISP 303
           P+K       W L  P
Sbjct: 126 PIK-------WALPGP 134


  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
   0.319    0.133    0.400 

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: 981,000
Number of extensions: 37058
Number of successful extensions: 107
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 107
Number of HSP's successfully gapped: 1
Length of query: 327
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 242
Effective length of database: 1,217,395
Effective search space: 294609590
Effective search space used: 294609590
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: 131 (55.1 bits)