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= 0001.3158.p
         (310 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312499|ref|YP_003776591.1| cbb3-type cytochrome c oxidase ...   597   e-172

>gi|300312499|ref|YP_003776591.1| cbb3-type cytochrome c oxidase
           subunit III transmembrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 310

 Score =  597 bits (1539), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 285/310 (91%), Positives = 297/310 (95%)

Query: 1   MADFTNGFWNLWIIVLTVLGIAGCALLLWQQSSWKVKKGDQPIPGSTTGHVWDEDLTELN 60
           MADFTNGFWN+WIIVLTVLGI GC LLLWQQS+WKVKKG++   GSTTGHVWDEDLTELN
Sbjct: 1   MADFTNGFWNIWIIVLTVLGIVGCTLLLWQQSNWKVKKGEEKAAGSTTGHVWDEDLTELN 60

Query: 61  NPLPRWWMWLFYLTIFFSVGYLIAYPGLGNLPGTLGWRSTGEHDADVKKAEAKYGPLFDN 120
           NPLPRWWMWLFYLTIFFS+GYL+AYPGLGNLPGTLGWRSTGEHDADVK AEAKYGPLF++
Sbjct: 61  NPLPRWWMWLFYLTIFFSIGYLVAYPGLGNLPGTLGWRSTGEHDADVKAAEAKYGPLFNH 120

Query: 121 YLKQDLKVVAADPQAHAIGERLFLTYCAQCHGSDARGNKGFPNLTDNDWLHGGTPEIIKE 180
           YLKQDLKVVA D QAHAIGERLFLTYCAQCHGSDARGNKGFPNLTDNDWLHGGTPEIIKE
Sbjct: 121 YLKQDLKVVAGDSQAHAIGERLFLTYCAQCHGSDARGNKGFPNLTDNDWLHGGTPEIIKE 180

Query: 181 TIMKGRHGVMPPMAAAVGSAQDVDNVANYVLSLSNSAHDPIKAELGKPKFAACAACHGPG 240
           TIMKGRHGVMPPMAAAVG+ +DVDNVANYVLSLS+S HDPIKAELGK KFAAC ACHGPG
Sbjct: 181 TIMKGRHGVMPPMAAAVGTDKDVDNVANYVLSLSDSTHDPIKAELGKSKFAACMACHGPG 240

Query: 241 GVGNQAIGAPNLSDKIWLYGGSIDTIKETINKGRDNTMPAFGEFLGEPKVHVLAAYVWSL 300
           G GNQA+GAPNLSDKIWLYGGSIDTIKETINKGRDNTMPAFGEFLGEPKVHVLAAYVWSL
Sbjct: 241 GKGNQALGAPNLSDKIWLYGGSIDTIKETINKGRDNTMPAFGEFLGEPKVHVLAAYVWSL 300

Query: 301 SNKPSNAAAK 310
           SNKPSNAAAK
Sbjct: 301 SNKPSNAAAK 310


  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    0.137    0.447 

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: 1,183,788
Number of extensions: 53698
Number of successful extensions: 149
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 145
Number of HSP's successfully gapped: 1
Length of query: 310
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 225
Effective length of database: 1,217,395
Effective search space: 273913875
Effective search space used: 273913875
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: 130 (54.7 bits)