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= 0028.0061.p
         (240 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311262|ref|YP_003775354.1| DNA repair protein [Herbaspiril...   484   e-138

>gi|300311262|ref|YP_003775354.1| DNA repair protein [Herbaspirillum
           seropedicae SmR1]
          Length = 286

 Score =  484 bits (1247), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 233/240 (97%), Positives = 237/240 (98%)

Query: 1   VPEKEHKVLAQPGFVLHSYPYKETSLIIDVFSRDHGRIALVAKGAKRPHSKLRGALQTFQ 60
           VPEKEHKVLAQPGFVLHSYPYKETSLIIDVFSRDHGR+ALVAKGAKRPHSKLRGALQTFQ
Sbjct: 47  VPEKEHKVLAQPGFVLHSYPYKETSLIIDVFSRDHGRVALVAKGAKRPHSKLRGALQTFQ 106

Query: 61  PLSLSWSGKSEVRTLTDAEWVGGLLPLEKSALLCGFYLNELLVKLLAREDAHPALFDHYV 120
           PLSLSWSGKSEVRTLTDAEWVGGLLPLEKSALLCGFYLNELLVKLLAREDAHPALFDHYV
Sbjct: 107 PLSLSWSGKSEVRTLTDAEWVGGLLPLEKSALLCGFYLNELLVKLLAREDAHPALFDHYV 166

Query: 121 ATLNKLAHGENAPIVLRQFERILLKQTGVAGNWSHCVASGKAVQPDGIYVVDPEQGTRPE 180
           ATLNKLAHGENAPIVLRQFERILLKQTGVAGNWSHCV SGK V+PD IYVVDPEQGTRPE
Sbjct: 167 ATLNKLAHGENAPIVLRQFERILLKQTGVAGNWSHCVVSGKTVRPDLIYVVDPEQGTRPE 226

Query: 181 RISDRAPKVSGKTLLDMEREDYSDPTTQLQSKFLMRYLLSHHLGGAQLNTRQILIDLMQL 240
           R+SDRAPKVSGKTLLDMEREDYSDPTTQLQSKFLMRYLL+HHLGGAQLNTRQILIDLMQL
Sbjct: 227 RLSDRAPKVSGKTLLDMEREDYSDPTTQLQSKFLMRYLLAHHLGGAQLNTRQILIDLMQL 286


  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    0.136    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: 779,936
Number of extensions: 31817
Number of successful extensions: 63
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 63
Number of HSP's successfully gapped: 1
Length of query: 240
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 157
Effective length of database: 1,226,865
Effective search space: 192617805
Effective search space used: 192617805
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: 129 (54.3 bits)