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= 0034.0079.p
         (208 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311778|ref|YP_003775870.1| cytochrome o ubiquinol oxidase ...   348   1e-97
gi|300313446|ref|YP_003777538.1| cytochrome c oxidase polypeptid...    93   2e-20
gi|300311626|ref|YP_003775718.1| cytochrome c oxidase polypeptid...    86   3e-18

>gi|300311778|ref|YP_003775870.1| cytochrome o ubiquinol oxidase
           subunit I protein [Herbaspirillum seropedicae SmR1]
          Length = 667

 Score =  348 bits (894), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 177/182 (97%), Positives = 178/182 (97%), Gaps = 1/182 (0%)

Query: 1   MSDNFDLIKLIFGRLSLEAIPYHEPILIGTFAMVALGGIVVLGLLTKYRLWGMLWRDWFT 60
           MSDNFDLIKLIFGRLSLEAIPYHEPILIGTFAMVALGGIVVLGLLTKYRLWGMLWRDWFT
Sbjct: 1   MSDNFDLIKLIFGRLSLEAIPYHEPILIGTFAMVALGGIVVLGLLTKYRLWGMLWRDWFT 60

Query: 61  SIDHKRIGIMYIVLAIVMLLRGFADALMMRAQQAIAFGDNAGFLPPHHYDQVFTAHGVIM 120
           SIDHKRIGIMYIVLAIVMLLRGFADA+MMRAQQAIAFGDNAGFLPPHHYDQVFTAHGVIM
Sbjct: 61  SIDHKRIGIMYIVLAIVMLLRGFADAVMMRAQQAIAFGDNAGFLPPHHYDQVFTAHGVIM 120

Query: 121 IFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGALLVMASLFVGESPAPAG 180
           IFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGALLVMASLFVGE  A  G
Sbjct: 121 IFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGALLVMASLFVGEF-ARTG 179

Query: 181 WL 182
           WL
Sbjct: 180 WL 181


>gi|300313446|ref|YP_003777538.1| cytochrome c oxidase polypeptide I
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 539

 Score = 92.8 bits (229), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 52/127 (40%), Positives = 73/127 (57%), Gaps = 3/127 (2%)

Query: 55  WRDWFTSIDHKRIGIMYIVLAIVMLLRGFADALMMRAQQAIAFGDNAGFLPPHHYDQVFT 114
           WR W  + +HK IG +Y+  +  MLL G   AL++RA+    F     F  P  ++Q+ T
Sbjct: 32  WRRWLFATNHKDIGTLYLWFSFTMLLSGGVLALLIRAE---LFQPGLQFFRPEFFNQLTT 88

Query: 115 AHGVIMIFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGALLVMASLFVGE 174
            HG++M+F   MP   G  N+++PLQIGA D+AF  +NNFSFW+    ALL+  S  V  
Sbjct: 89  MHGLVMVFGAIMPAFVGFANWMIPLQIGASDMAFARMNNFSFWLLPPAALLLAGSFLVPG 148

Query: 175 SPAPAGW 181
               AGW
Sbjct: 149 GATAAGW 155


>gi|300311626|ref|YP_003775718.1| cytochrome c oxidase polypeptide I
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 633

 Score = 85.5 bits (210), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 51/132 (38%), Positives = 72/132 (54%), Gaps = 9/132 (6%)

Query: 50  LWGMLWRDWFTSIDHKRIGIMYIVLAIVMLLRGFADALMMRAQQAIAFGDNAGFLPPHHY 109
           LWG     W  +++HK I   ++V   V  L G   AL MR Q A     +A  +    Y
Sbjct: 23  LWG-----WLCAVNHKAIARRFMVTTFVFFLLGGMLALAMRLQLA---RPDAELIGARLY 74

Query: 110 DQVFTAHGVIMIFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGALLVMAS 169
           +Q+FT HG  M+F  A+P++  +  Y++PL IGAR VAFP LN F++W+  FG LL+  +
Sbjct: 75  NQLFTMHGTTMMFLFAVPVMQAVAAYLLPLMIGARSVAFPRLNAFAYWIFLFGGLLLYGA 134

Query: 170 LFVGESPAPAGW 181
              G  P   GW
Sbjct: 135 FLAGSGPD-VGW 145


  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
   0.332    0.144    0.487 

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: 637,133
Number of extensions: 23617
Number of successful extensions: 76
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 75
Number of HSP's successfully gapped: 3
Length of query: 208
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 127
Effective length of database: 1,236,335
Effective search space: 157014545
Effective search space used: 157014545
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 128 (53.9 bits)