HHsearch alignment for GI: 254780611 and conserved domain: TIGR02895

>TIGR02895 spore_sigI RNA polymerase sigma-I factor; InterPro: IPR014244 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognized by the major sigma factors , . This entry represents the transcription factor Sigma-I. This protein is found in endospore-forming species in the Firmicutes lineage of bacteria, such as Bacillus subtilis, but is not universally present among such species. Sigma-I was shown to be induced by heat shock in B. subtilis and is suggested by its phylogenetic profile to be connected to the program of sporulation .; GO: 0003677 DNA binding, 0003700 transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, 0006355 regulation of transcription DNA-dependent.
Probab=98.56  E-value=1.9e-07  Score=69.26  Aligned_cols=79  Identities=16%  Similarity=0.272  Sum_probs=68.7

Q ss_conf             285999999999430778756555579999--888999999888998986218534568999757789999998532024
Q Consensus        44 ~gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~--~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~  121 (302)
T Consensus         6 ~~~~~l~e~LI~~Y~PFI~k~vs~~~~ryId~~~DDE~SIGL~AFnEAI~sY~~~KG~sFL~FA~l~IkRr~IDy~R~n~   85 (225)
T ss_conf             88068999998851468999999986330688888325588999998998731435621699999988999888887411

Q ss_pred             C
Q ss_conf             6
Q gi|254780611|r  122 S  122 (302)
Q Consensus       122 ~  122 (302)
T Consensus        86 k   86 (225)
T TIGR02895        86 K   86 (225)
T ss_pred             H
T ss_conf             1