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= 0007.0109.p
         (478 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312501|ref|YP_003776593.1| cbb3-type cytochrome c oxidase ...   786   0.0  

>gi|300312501|ref|YP_003776593.1| cbb3-type cytochrome c oxidase
           subunit I transmembrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 475

 Score =  786 bits (2030), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 378/472 (80%), Positives = 430/472 (91%)

Query: 1   VDRELNYNYRIVKQFTIATVVWGVIGMLAGVFIAAQLAWPALNFDIPWLTYGRLRPLHTN 60
           + +E +YNY +V+QFT+AT++WGV+GML GV IAAQLAWP LN  +PWL++GRLRPLHTN
Sbjct: 1   MSKENSYNYTVVRQFTVATILWGVVGMLVGVIIAAQLAWPELNMGVPWLSFGRLRPLHTN 60

Query: 61  AVIFAFGICGLFATSYYVVQRTCQVRLFSDKLAAFTFWGWQLVLVSAAITLPMGFTRGKE 120
           AVIFAFG C L ATSYYVVQRTCQVRLFSD LAAFTFWGWQLV+V AAI+LP+G TRGKE
Sbjct: 61  AVIFAFGGCALMATSYYVVQRTCQVRLFSDFLAAFTFWGWQLVIVGAAISLPLGLTRGKE 120

Query: 121 YAELEWPIALLITVVWVTYAVVFFGTLIKRKVRHIYVANWFFGAYIIAVALLHVVNGAAM 180
           YAELEWP+ +LI VVWV YAVVFFGTLIKRKV+HIYVANWF+GA+IIAVA+LH+VNG  M
Sbjct: 121 YAELEWPLTILIAVVWVAYAVVFFGTLIKRKVQHIYVANWFYGAFIIAVAILHIVNGMTM 180

Query: 181 PVSLWKSYSAYAGVQDAMIQWWYGHNAVGFILTAGYLGMVYYFIPKQAERPVYSYRLSIV 240
           P +L KSYS Y+G QDAMIQWWYGHNAVGF LTAG+LGM+YYFIPKQ  RPVYSYRLSIV
Sbjct: 181 PATLTKSYSMYSGAQDAMIQWWYGHNAVGFFLTAGFLGMMYYFIPKQVNRPVYSYRLSIV 240

Query: 241 HFWALIFTYMWAGPHHLHYTALPDWTQSIGMVFSLILLAPSWGGMINGIMTLSGAWHKLR 300
           HFWALIFTYMWAGPHHLHYTALPDWTQS+GMVFSLILLAPSWGGMING+MTLSGAWH+LR
Sbjct: 241 HFWALIFTYMWAGPHHLHYTALPDWTQSLGMVFSLILLAPSWGGMINGMMTLSGAWHQLR 300

Query: 301 SDPLLKFMIVSLSFYGMATFEGPMMSIKTVNALSHYTDWGIAHVHSGALGWVGFITMGSI 360
           +DP+LKF++VSLSFYGM+TFEGPMM+IKTVNALSHYTDW I HVHSGALGWVGF+TMG++
Sbjct: 301 TDPILKFLVVSLSFYGMSTFEGPMMAIKTVNALSHYTDWTIGHVHSGALGWVGFVTMGAM 360

Query: 361 YYLIPRMSGKREMWSVRLVDLHFWVATIGVVLYIASMWIAGVMQGLMWRAVNADGTLTYT 420
           YYLIPR+SGK +MWS  L+++HFWVATIG+VLYIA+MWIAGVMQGLMWRAVNADGTLTYT
Sbjct: 361 YYLIPRLSGKTQMWSKDLIEIHFWVATIGIVLYIAAMWIAGVMQGLMWRAVNADGTLTYT 420

Query: 421 FAEGVKATYPYYVIRFTGGLLYLTGMVMMAYNTYRTMRDGQPVEARIPVLTN 472
           F E VKATYPYYVIR  GGL+YL+GM++MAYNT+RTMR  +   A IP +TN
Sbjct: 421 FVESVKATYPYYVIRLMGGLMYLSGMLVMAYNTWRTMRGTELAVAPIPAVTN 472


  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
   0.329    0.140    0.469 

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: 1,592,126
Number of extensions: 69316
Number of successful extensions: 261
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 261
Number of HSP's successfully gapped: 3
Length of query: 478
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 389
Effective length of database: 1,198,455
Effective search space: 466198995
Effective search space used: 466198995
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 132 (55.5 bits)