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= 0030.0137.p
         (285 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311779|ref|YP_003775871.1| cytochrome o ubiquinol oxidase ...   590   e-170
gi|300311627|ref|YP_003775719.1| cytochrome c oxidase polypeptid...    55   1e-08

>gi|300311779|ref|YP_003775871.1| cytochrome o ubiquinol oxidase
           subunit II protein [Herbaspirillum seropedicae SmR1]
          Length = 310

 Score =  590 bits (1520), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 284/285 (99%), Positives = 285/285 (100%)

Query: 1   MNPSGDIANQQARLIVISTALMLLIIVPVIILTLLFAWRYRKSNTSAPYEPDWDHSTRLE 60
           MNPSGDIANQQARLI+ISTALMLLIIVPVIILTLLFAWRYRKSNTSAPYEPDWDHSTRLE
Sbjct: 26  MNPSGDIANQQARLIIISTALMLLIIVPVIILTLLFAWRYRKSNTSAPYEPDWDHSTRLE 85

Query: 61  LVIWGAPLLIIIALGLLTWITTHTLDPYRPLSRIDAERPLSPQVKPLVVEVVALDWKWLF 120
           LVIWGAPLLIIIALGLLTWITTHTLDPYRPLSRIDAERPLSPQVKPLVVEVVALDWKWLF
Sbjct: 86  LVIWGAPLLIIIALGLLTWITTHTLDPYRPLSRIDAERPLSPQVKPLVVEVVALDWKWLF 145

Query: 121 IYPEQGIATVNELAAPVDVPIQFKITASSVMNSFYIPALAGQIYAMPGMETKLHAVINKA 180
           IYPEQGIATVNELAAPVDVPIQFKITASSVMNSFYIPALAGQIYAMPGMETKLHAVINKA
Sbjct: 146 IYPEQGIATVNELAAPVDVPIQFKITASSVMNSFYIPALAGQIYAMPGMETKLHAVINKA 205

Query: 181 GEYEGFSANYSGAGFSHMRFKFHGLDQAGFDAWVQKAKAGSGKLDRAEYLKLEQPSEREP 240
           GEYEGFSANYSGAGFSHMRFKFHGLDQAGFDAWVQKAKAGSGKLDRAEYLKLEQPSEREP
Sbjct: 206 GEYEGFSANYSGAGFSHMRFKFHGLDQAGFDAWVQKAKAGSGKLDRAEYLKLEQPSEREP 265

Query: 241 ARLIGSTEPNLFHAIVNRCVAPNTVCMDKMMATDLNVKPGQQKAE 285
           ARLIGSTEPNLFHAIVNRCVAPNTVCMDKMMATDLNVKPGQQKAE
Sbjct: 266 ARLIGSTEPNLFHAIVNRCVAPNTVCMDKMMATDLNVKPGQQKAE 310


>gi|300311627|ref|YP_003775719.1| cytochrome c oxidase polypeptide
           II precursor transmembrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 344

 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/105 (29%), Positives = 48/105 (45%), Gaps = 6/105 (5%)

Query: 102 PQVKPLVVEVVALDWKWLFIYPE----QGIATVNELAAPVDVPIQFKITASSVMNSFYIP 157
           P    L V++ A  W W   Y +    QG  T NEL  PV   +   + +  V++S ++P
Sbjct: 122 PTAGALQVKLTARQWWWQAQYHDPLTGQGFTTANELHLPVGRAVIIDLDSEDVIHSLWLP 181

Query: 158 ALAGQIYAMPGMETKLHAVINKAGEYEGFSANYSGAGFSHMRFKF 202
            L G++  +PG   +L    ++AG Y G  A +   G  H R   
Sbjct: 182 NLHGKLDLIPGKPAQLRLRADQAGTYRGQCAEFC--GLEHARMAL 224


  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
   0.321    0.136    0.415 

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: 814,635
Number of extensions: 31354
Number of successful extensions: 85
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 85
Number of HSP's successfully gapped: 2
Length of query: 285
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 201
Effective length of database: 1,222,130
Effective search space: 245648130
Effective search space used: 245648130
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 130 (54.7 bits)