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= 0317.0006.p
         (297 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

STM1576 [P] COG2223 Nitrate/nitrite transporter                       203   2e-52

>STM1576 [P] COG2223 Nitrate/nitrite transporter
          Length = 462

 Score =  203 bits (517), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 9/238 (3%), Positives = 33/238 (13%), Gaps = 5/238 (2%)

Query: 7   KERIDVLLVEQGFFASREKAKAAIMAGLVLADEERIEKAGMKVPRSAVLRVKGAVHP-YV 65
           +       +   +             G+   +        +         +  AV     
Sbjct: 4   QNENYNRYLLSDWRPENPAFWENKGKGIARRNLWISVSCLLLAFCVW--MLFSAVAVNLN 61

Query: 66  SRGGLKLEKALRQFGIDLNGRVMLDIGSSTGGFTDCALQNGASHVYAIDVGYNQLDWRLR 125
             G       L       +    +     +        +        I +          
Sbjct: 62  KIGFNFTTDQLFLLTALPSLSGAILRVPYSFMVPLFGGRKWTVLSTVILIIPCAWLGFAV 121

Query: 126 NDERVSVMEQTNFRYMTPPDLQGPVPDFASIDVSFXXXXXXXXXXXXXXERPADIAALIK 185
            +             +                  F                     ++++
Sbjct: 122 QNPATPFGVFMLIALLCGFAG-ANFASSMGNISFFFPKARQGSALGINGGLGNLGVSVMQ 180

Query: 186 PQFEAGREKVGKSGVVREPAVHKEVLMGVLGMASGLGYRLEGLTFSPITGGEGNIEFL 243
                          +    V +     +    +   +       +       N    
Sbjct: 181 LIAPLVIFLP-IFTFLGVQGVPQPDGSLLALTNAAWIWVPLLAVATLAAWFGMNDIGS 237


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.317    0.134    0.384 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 21,566,664
Number of extensions: 884348
Number of successful extensions: 2830
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2827
Number of HSP's successfully gapped: 1
Length of query: 297
Length of database: 38,378,431
Length adjustment: 106
Effective length of query: 191
Effective length of database: 26,153,027
Effective search space: 4995228157
Effective search space used: 4995228157
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 115 (48.9 bits)