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= 0001.0016.p
         (333 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 ...   441   e-125

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

 Score =  441 bits (1133), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 217/283 (76%), Positives = 246/283 (86%)

Query: 21  CNTVVLNPSGDIANQQGRLIIISTILMLLIIVPVIVLIGLFAWRYRQNNTAARYEPDWDH 80
           CNTVV+NPSGDIANQQ RLIIIST LMLLIIVPVI+L  LFAWRYR++NT+A YEPDWDH
Sbjct: 21  CNTVVMNPSGDIANQQARLIIISTALMLLIIVPVIILTLLFAWRYRKSNTSAPYEPDWDH 80

Query: 81  STQLELVIWGAPLLIIIALGLLTWISTHTLDPYRKLSRLDALRPIPENVKPLIVEVVALD 140
           ST+LELVIWGAPLLIIIALGLLTWI+THTLDPYR LSR+DA RP+   VKPL+VEVVALD
Sbjct: 81  STRLELVIWGAPLLIIIALGLLTWITTHTLDPYRPLSRIDAERPLSPQVKPLVVEVVALD 140

Query: 141 WKWLFIYPEQGVATVNELAAPVDRPIEFRITASTVMNSFYIPALAGQIYAMPGMQTKLNA 200
           WKWLFIYPEQG+ATVNELAAPVD PI+F+ITAS+VMNSFYIPALAGQIYAMPGM+TKL+A
Sbjct: 141 WKWLFIYPEQGIATVNELAAPVDVPIQFKITASSVMNSFYIPALAGQIYAMPGMETKLHA 200

Query: 201 VINKPGEFEGFSANYSGAGFSDMRFKFHGVSDEDFDAWVKKIKSGGGALKRTEYLALEKP 260
           VINK GE+EGFSANYSGAGFS MRFKFHG+    FDAWV+K K+G G L R EYL LE+P
Sbjct: 201 VINKAGEYEGFSANYSGAGFSHMRFKFHGLDQAGFDAWVQKAKAGSGKLDRAEYLKLEQP 260

Query: 261 SIKDPVQHFNAVDGTLYHAILNRCVAEGQVCMDQQMMTDKNVK 303
           S ++P +   + +  L+HAI+NRCVA   VCMD+ M TD NVK
Sbjct: 261 SEREPARLIGSTEPNLFHAIVNRCVAPNTVCMDKMMATDLNVK 303


  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
   0.322    0.138    0.420 

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: 883,023
Number of extensions: 31033
Number of successful extensions: 91
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 91
Number of HSP's successfully gapped: 1
Length of query: 333
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 247
Effective length of database: 1,212,660
Effective search space: 299527020
Effective search space used: 299527020
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: 131 (55.1 bits)