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= 0004.0024.p
         (127 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313670|ref|YP_003777762.1| cytochrome c family protein [He...   206   6e-55

>gi|300313670|ref|YP_003777762.1| cytochrome c family protein
           [Herbaspirillum seropedicae SmR1]
          Length = 189

 Score =  206 bits (523), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 94/113 (83%), Positives = 104/113 (92%)

Query: 1   MIAARIKPVASEGFTFRDANAPKQLLSGEEVFKSTCAACHGAGIAGAPKVGDPAAWKARI 60
           MIAARIKPV+ +GFTFRDAN PKQLLSGEEV+K+TCAACH AG+AGAPKVGD A+W+ARI
Sbjct: 57  MIAARIKPVSDDGFTFRDANGPKQLLSGEEVYKTTCAACHSAGVAGAPKVGDAASWQARI 116

Query: 61  GEGYDKLLAHAINGLNAMPPKGGNPDLDDVEIARTVVYMANQSGAKFKEPEVK 113
            +GYD L++HAINGL AMP KGGNPDLDDVEI RTVVYMANQSGAKFKEPEVK
Sbjct: 117 AQGYDTLVSHAINGLRAMPAKGGNPDLDDVEIQRTVVYMANQSGAKFKEPEVK 169


  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
   0.313    0.130    0.385 

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: 330,646
Number of extensions: 11465
Number of successful extensions: 30
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 31
Number of HSP's successfully gapped: 1
Length of query: 127
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 52
Effective length of database: 1,264,745
Effective search space: 65766740
Effective search space used: 65766740
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 125 (52.8 bits)