>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family; InterPro: IPR014325 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 group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor . The protein appears to include a paralogous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives..

Probab=96.51 E-value=0.0015 Score=46.93 Aligned_cols=150 Identities=18% Similarity=0.253 Sum_probs=101.3 Q ss_pred HHHHHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECCCHH Q ss_conf 998755578999887522-3567778875443679999887438545731201028989999999997228704614205 Q gi|254780289|r 447 EMVEANLRLVISVAKKYT-NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 (682) Q Consensus 447 ~l~~anlr~v~~~~~~~~-~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~~~~ 525 (682) T Consensus 10 ~f~~~r~~~L~r~A~lLt~GD~~~AEDLvQ~Al~~~y~rW~Ri------~~~~~~~aYvR~vl~n~~~s~wRrR~~---- 79 (165) T TIGR02983 10 AFVAARYPRLLRTAYLLTAGDPHEAEDLVQEALVRTYVRWDRI------RDADAPDAYVRRVLVNLAISRWRRRRV---- 79 (165) T ss_pred HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCC------CCCCCCHHHHHHHHHHHHHHHHHHHHH---- T ss_conf 9999999999999999827887569999999999998862215------882540578999999999999998876---- Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHH Q ss_conf 88989999999998776088999789998709998999999986089875536358899860475623898899899999 Q gi|254780289|r 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 (682) Q Consensus 526 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~~~~~ 605 (682) T Consensus 80 ----------~~e~---------------------------------------~~~~---------~Pd~~--ga~d~~~ 99 (165) T TIGR02983 80 ----------RLEL---------------------------------------PTEE---------LPDAA--GAPDPAA 99 (165) T ss_pred ----------HHHC---------------------------------------CCCC---------CCCCC--CCCCCCC T ss_conf ----------4421---------------------------------------4668---------64888--8987531 Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCH Q ss_conf 99999999999732998899999998187986746889998996678999999999999983296 Q gi|254780289|r 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 (682) Q Consensus 606 ~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~~ 670 (682) T Consensus 100 ~~~~r~~l~~AL~~LP~rQR~vvVLRY----~eDlSe~~~A~~LG~SvGTVKS~~sRal~~LR~~ 160 (165) T TIGR02983 100 DVALRAALARALRRLPARQRAVVVLRY----YEDLSEAEVAEVLGISVGTVKSRLSRALARLREL 160 (165) T ss_pred CHHHHHHHHHHHHHCCHHCCEEEEEEC----CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHH T ss_conf 122699999999735641236723204----5789868999881999322899899999998873

HHsearch alignment for GI: 254780289 and conserved domain: TIGR02983