BLASTP 2.2.21 [Jun-14-2009]

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= 0028.0308.p         (192 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSc2078 [K] COG1595 DNA-directed RNA polymerase specialized sigm...   291   8e-79

>RSc2078 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Rso Ralstonia solanacearum
          Length = 188

 Score =  291 bits (744), Expect = 8e-79,   Method: Compositional matrix adjust.
 Identities = 146/192 (76%), Positives = 163/192 (84%), Gaps = 4/192 (2%)

Query: 1   MATDKELSDFLESVERRAFKQAVYAVRKDEAALDIVQDAMIKLAEKYGDKPVDELPMLFQ 60
           MA+++ELS FL SVE+RAFKQAV+AVR D+AALDIVQDAMIKLAEKYGDKP  ELP+LFQ
Sbjct: 1   MASEQELSAFLLSVEKRAFKQAVFAVRDDDAALDIVQDAMIKLAEKYGDKPEAELPLLFQ 60

Query: 61  RILQNTIHDFFRREKVRNTWVSLFSSFGGNGGDGEGGDDFDLLESLESEDGSQAAESSAD 120
           RILQNTIHD+FRR KVRNTWVSLFSSF  +    +       LE +ESE GS AAESSAD
Sbjct: 61  RILQNTIHDWFRRTKVRNTWVSLFSSFRTDTDGDDTDP----LELIESEAGSTAAESSAD 116

Query: 121 KVEREQTLNLIDAEIQKLPTRQREAFLMRYWQDMDVAETAAAMGCSEGSVKTHCSRATHA 180
           KVER Q L +++ EI+KLP RQREAFLMRYW+DMDVAETA AMGCSEGSVKTHCSRATHA
Sbjct: 117 KVERAQVLQILEREIEKLPARQREAFLMRYWEDMDVAETAQAMGCSEGSVKTHCSRATHA 176

Query: 181 LAQALRAKGISL 192
           LAQALRA+GI L
Sbjct: 177 LAQALRARGIRL 188