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= 0001.4021.p
         (239 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313441|ref|YP_003777533.1| transmembrane cytochrome oxidas...   380   e-107

>gi|300313441|ref|YP_003777533.1| transmembrane cytochrome oxidase
           complex biogenesis factor transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 240

 Score =  380 bits (976), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 187/239 (78%), Positives = 213/239 (89%), Gaps = 1/239 (0%)

Query: 1   MPTRFVFRIIPFCATVIVAAAGIALGQWQTHRAEEKQALQQRLQMRASEAPLSSLPAADA 60
           MPTRF FRIIPFCA +IVAAAGIALGQWQTHRA+EKQALQ R+Q RA+EAPLS+LP  D 
Sbjct: 1   MPTRFRFRIIPFCAMLIVAAAGIALGQWQTHRAQEKQALQARMQARAAEAPLSALPPDDQ 60

Query: 61  A-DVEFARIKLRGQFVPQWTLYLENRPYQGSVGFYVLTLFQPEGSAQAVMVARGWAPRDA 119
           +   EF ++ LRGQF+PQWTLYLENRP+QG+VGF+VLTLF+PEGSAQAV+VARGWAPRDA
Sbjct: 61  SLQDEFRQVSLRGQFIPQWTLYLENRPHQGAVGFHVLTLFKPEGSAQAVVVARGWAPRDA 120

Query: 120 LERTRVPQVAPPVGVVEVEGVLRRDAGHVLQLGQADAPRPQAILQNLDMPALAQASGVAL 179
           ++RTRVPQ  P  G  EV+G+LRRDAGHVLQLGQADAPRP AILQNLD+ ALAQASG+ L
Sbjct: 121 VDRTRVPQSPPAQGTTEVQGLLRRDAGHVLQLGQADAPRPGAILQNLDLAALAQASGMPL 180

Query: 180 SPFVIEQGGAAGDTLVRDWPAPALGIDRHRGYAVQWYALAAMALIFFIVTGFKRGRHDK 238
           S FVIEQGG   D L+RDWPAP+LGIDRHRGYAVQWYALAAMA++FFIVTGF+RGR+DK
Sbjct: 181 SGFVIEQGGDVSDGLLRDWPAPSLGIDRHRGYAVQWYALAAMAVLFFIVTGFRRGRNDK 239


  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
   0.324    0.137    0.418 

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: 692,615
Number of extensions: 26060
Number of successful extensions: 130
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 2
Length of query: 239
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 157
Effective length of database: 1,231,600
Effective search space: 193361200
Effective search space used: 193361200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 129 (54.3 bits)