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= 0249.0005.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|300312206|ref|YP_003776298.1| nitrite reductase small subunit...   174   3e-45

>gi|300312206|ref|YP_003776298.1| nitrite reductase small subunit
           [Herbaspirillum seropedicae SmR1]
          Length = 120

 Score =  174 bits (440), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 82/123 (66%), Positives = 102/123 (82%), Gaps = 5/123 (4%)

Query: 7   MHSDRQLNHCEHWTEVCDIADIVPNTGVCALIGSEQVAVFHVIDGAHNET--RVFAIGNY 64
           MHSD+Q+   +HWT VC++ +IVPNTGV AL+G +QVAVFHVID +  E   RVFA+GNY
Sbjct: 1   MHSDQQI---KHWTPVCELGEIVPNTGVAALVGDQQVAVFHVIDRSQGEPQPRVFAVGNY 57

Query: 65  DPNAEASVLSRGLVGSIGERIVVASPIYKQHFDLQTGECIEAPEHSVSAYPARVEHGKVW 124
           DPN +A+VLSRGLVG++GERIVVASPIYK HFDL TGEC+E P +S+ A+PAR+  GKVW
Sbjct: 58  DPNCDAAVLSRGLVGNLGERIVVASPIYKHHFDLTTGECLEEPANSIPAWPARIADGKVW 117

Query: 125 VGA 127
           +GA
Sbjct: 118 IGA 120


  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    0.134    0.415 

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: 408,270
Number of extensions: 15409
Number of successful extensions: 36
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 35
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 125 (52.8 bits)