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= 0113.0012.p
         (162 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310168|ref|YP_003774260.1| DNA mismatch repair protein [He...   164   3e-42

>gi|300310168|ref|YP_003774260.1| DNA mismatch repair protein
           [Herbaspirillum seropedicae SmR1]
          Length = 627

 Score =  164 bits (415), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 93/147 (63%), Positives = 100/147 (68%), Gaps = 24/147 (16%)

Query: 1   VAQNTGEYGAMFQPGVQTNLDMASGFDNRTAPSAFAMPASAHTQPQPLP--------DGE 52
           V QNT  YG+MF                R+AP++     SA       P        +G+
Sbjct: 391 VRQNTEAYGSMF----------------RSAPTSGEPDGSAPAAYGATPAAAPAALPEGD 434

Query: 53  FPLGFALAQLHGIYVLAQNSKGLVVVDMHAAHERILYEQLKNALDDNSMFVQPLLIPVTF 112
           FPLGFALAQLHGIYVLAQN  GLVVVDMHAAHERILYEQLK ALD N MFVQPLLIPVTF
Sbjct: 435 FPLGFALAQLHGIYVLAQNQAGLVVVDMHAAHERILYEQLKTALDGNEMFVQPLLIPVTF 494

Query: 113 YADAVEVGTAEEHQETLSALGFDIAAI 139
           YAD VEVGT EEHQETLSALGFDIA +
Sbjct: 495 YADPVEVGTVEEHQETLSALGFDIAVM 521


  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
   0.322    0.136    0.404 

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: 516,266
Number of extensions: 20879
Number of successful extensions: 52
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 51
Number of HSP's successfully gapped: 1
Length of query: 162
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 84
Effective length of database: 1,250,540
Effective search space: 105045360
Effective search space used: 105045360
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 (21.9 bits)
S2: 127 (53.5 bits)