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= 0007.0055.p
         (381 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310659|ref|YP_003774751.1| aerobic-type carbon monoxide de...    80   4e-16

>gi|300310659|ref|YP_003774751.1| aerobic-type carbon monoxide
           dehydrogenase large subunit [Herbaspirillum seropedicae
           SmR1]
          Length = 759

 Score = 79.7 bits (195), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 73/259 (28%), Positives = 116/259 (44%), Gaps = 27/259 (10%)

Query: 125 PYAIPNIRVEAPEVEAHTRIGWFRSVSNIPHAFAVQSFSAELAAAAKRDHRDYLLELIGP 184
           PYA P+++++  +V    R GW R VS +P++FA + F  ELA  A  D   + L  +  
Sbjct: 503 PYAYPHMQIDCDDVAPIVRAGWLRGVSAMPNSFAHEVFIDELAELAGADRLAFRLAHLPD 562

Query: 185 ARKINPSEMADGWNYGESPERYPLDTGRMRGVIELATSKAGWGRKLPKGRGLGLA----V 240
            R    SE+                     G +  A    G  +   K RG G+A    V
Sbjct: 563 QRA---SELLQA-------------VAHKAGWVAHAQGSRGQVQADGKLRGRGIAYARYV 606

Query: 241 CYSFVTYIAA----VVEVEVND-EGEVSIPRVDIAVDCGPSINPDRIRSQVEGACIMGIS 295
              F  + AA    V++VEV+   G +++  + +  D G  +NP  +R Q+ G  +  +S
Sbjct: 607 HSKFPGFGAAWSAWVIDVEVDPVTGALAVTSLVVGQDTGMMVNPAGVRHQMHGNILQSLS 666

Query: 296 LAMTGEISFKNGAVEQSNFHDYEVLRAFAAPAKIDVHIVPHTLDVPLGGVGEPATPTIAP 355
             +   ++F         +  Y +L     P  I++ ++    D P  G GE A+   A 
Sbjct: 667 RVLKERVAFGPHGASSLEWGAYPILHFTEVP-PIEI-VLMERQDQPPMGAGESASVPSAA 724

Query: 356 ALCNAIFAATGKRIRQLPI 374
           AL NA+F ATG+R+RQ P 
Sbjct: 725 ALSNALFDATGRRLRQPPF 743


  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
   0.318    0.135    0.402 

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: 1,082,160
Number of extensions: 41730
Number of successful extensions: 124
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 122
Number of HSP's successfully gapped: 1
Length of query: 381
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 294
Effective length of database: 1,207,925
Effective search space: 355129950
Effective search space used: 355129950
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 (21.7 bits)
S2: 131 (55.1 bits)