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= 0002.0465.p
         (468 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313334|ref|YP_003777426.1| cytochrome b subunit transmembr...   862   0.0  

>gi|300313334|ref|YP_003777426.1| cytochrome b subunit transmembrane
           protein [Herbaspirillum seropedicae SmR1]
          Length = 468

 Score =  862 bits (2227), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 419/468 (89%), Positives = 444/468 (94%)

Query: 1   MAAFQEKQLPKDAPVSAKALNWVDARFPLTSTWKAHLSEYYAPKNFNFWYAFGSLALLVL 60
           M AF EK+LP DAPVSAKALNWVD+RFPLT+TWKAHLSEYYAPKNFNFWY FGSLALLVL
Sbjct: 1   MGAFHEKKLPDDAPVSAKALNWVDSRFPLTATWKAHLSEYYAPKNFNFWYIFGSLALLVL 60

Query: 61  VIQIVTGIFLVMHYKPDATLAFASVEYIMRDVPWGWLVRYMHSTGASAFFIVVYLHMVRG 120
           VIQIVTGIFLVMHYKPDATLAFASVEYIMRDVPWGWLVRYMHSTGASAFFIVVYLHMVRG
Sbjct: 61  VIQIVTGIFLVMHYKPDATLAFASVEYIMRDVPWGWLVRYMHSTGASAFFIVVYLHMVRG 120

Query: 121 LLYGSYRKPRELVWLFGVAIFLCLMGEAFMGYLLPWGQMSYWGAQVIVNLFGAIPFIGPD 180
           LLYGSYRKPRELVWLFGV IFLCLMGEAF GYLLPWGQMSYWGAQVIVNLFGAIPFIGPD
Sbjct: 121 LLYGSYRKPRELVWLFGVGIFLCLMGEAFFGYLLPWGQMSYWGAQVIVNLFGAIPFIGPD 180

Query: 181 LSLWIRGDYVVSDATLNRFFSFHVIAIPLVLIGLVVAHIIALHEVGSNNPDGVEIKEKLD 240
           LSLWIRGDYVVSDATLNRFFSFHVIAIPLVLIGLVVAHIIALHEVGSNNPDGVEIKEK D
Sbjct: 181 LSLWIRGDYVVSDATLNRFFSFHVIAIPLVLIGLVVAHIIALHEVGSNNPDGVEIKEKTD 240

Query: 241 ANGIPLDGVPFHPYYSVHDIMAVAVFLIVFTAVVFFAPEMGGYFLEYNNFVPADSLKTPP 300
             G+PLDGVPFHPYY+VHDI  V++FL+VF+AVVFFAPEMGGYFLEYNNF+PADSLKTPP
Sbjct: 241 EKGVPLDGVPFHPYYTVHDIFGVSIFLMVFSAVVFFAPEMGGYFLEYNNFIPADSLKTPP 300

Query: 301 HIAPVWYFTPFYSILRATTSDFMAYLMAGVAAYVALLVFRSQRSSIFKIAAIVIGVAVIA 360
           HIAPVWYFTPFYSILRATT+DFM +L+AGVAAYVALLVF+S+ SS  KIAAIVIG+A+I 
Sbjct: 301 HIAPVWYFTPFYSILRATTADFMGWLIAGVAAYVALLVFKSRLSSKLKIAAIVIGLAIIG 360

Query: 361 GMAIFDAKFWGVVLMGVSVMILGGLPWLDHSQVKSIRYRPSWHKYVYLVFGVAFVALGYL 420
           GM IFDAKFWGVVLMG+SV+ILGGLPWLD SQVKSIRYRPSWHKYVYLVFG+AFV LGYL
Sbjct: 361 GMLIFDAKFWGVVLMGLSVVILGGLPWLDKSQVKSIRYRPSWHKYVYLVFGIAFVILGYL 420

Query: 421 GVQPPTAVGTTIAQIGTFIYFGFFLLMPWWSALGRFKPVPDRVTYHPH 468
           GVQPPTA+GTT++Q+ +FIY GFFLLMPWWSA G FKPVPDRV YHPH
Sbjct: 421 GVQPPTAIGTTVSQVCSFIYLGFFLLMPWWSAAGTFKPVPDRVVYHPH 468


  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
   0.330    0.144    0.470 

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: 1,511,076
Number of extensions: 64707
Number of successful extensions: 222
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 222
Number of HSP's successfully gapped: 1
Length of query: 468
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 379
Effective length of database: 1,198,455
Effective search space: 454214445
Effective search space used: 454214445
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)