>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; InterPro: IPR014331 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 of sigma factors are members of the sigma-70 family and are abundantly found in the species Rhodopirellula baltica, and Verrucomicrobium spinosum and to a lesser extent in Gemmata obscuriglobus.; GO: 0003677 DNA binding, 0003700 transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, 0006355 regulation of transcription DNA-dependent.

Probab=98.69 E-value=1.1e-06 Score=64.11 Aligned_cols=156 Identities=17% Similarity=0.238 Sum_probs=93.2 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCH Q ss_conf 99994307787565555799998889999998889989862185345689997577899999985320246001102300 Q gi|254780611|r 52 RLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVKIGTTAN 131 (302) Q Consensus 52 ~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA~~wIr~~I~~~i~~~~~~IRiP~~~~ 131 (302) T Consensus 5 ~ll~~h~~~~rafv~~L~~~~~dadDv~QEt~v~~~~k~~~f~~~~~--F~aWa~~iArn~vl~~~r~~~R~-------- 74 (163) T TIGR02989 5 RLLTRHQRSLRAFVRSLVPDRDDADDVLQETFVTAWRKFDEFDPGTD--FGAWARGIARNKVLNHRRKLGRD-------- 74 (163) T ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHHHHHHCCCC-------- T ss_conf 99999989999999997179565888999999999860775178989--76789999999999998730244-------- Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHCCCCCCCCCC Q ss_conf 35899999999788786624478882467788861898321100000012234335520232345320000012356870 Q gi|254780611|r 132 QKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNALINSSDKNSSQWQDWLVYDHDGQ 211 (302) Q Consensus 132 ~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~SLd~~i~~~d~~~~~~~d~l~~~~~~~ 211 (302) T Consensus 75 -~----------~~l~~f~D~-----l~e~lA~~~--------------------~~~---------------------- 96 (163) T TIGR02989 75 -R----------ERLVVFDDE-----LLEALAAEL--------------------EEA---------------------- 96 (163) T ss_pred -C----------HHHHHHHHH-----HHHHHHHHH--------------------HHH---------------------- T ss_conf -1----------277762599-----999999987--------------------555---------------------- Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 56556666666777999999621999999999998278888898999999778999999999999999999999 Q gi|254780611|r 212 EQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 (302) Q Consensus 212 ~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS~eRVrQI~~~AL~kLR~~l~ 285 (302) T Consensus 97 ----~~~~~~~~~~~AL~~C~~~L~~~~R~Ll~~rY~~G--~~~~~~A~~~g~~~~A~~~----~L~R~R~~L~ 160 (163) T TIGR02989 97 ----EEADRSEDELQALEGCLEKLPERQRELLQLRYQRG--VSLEALAEQLGRTVNAVYK----ALSRLRVRLR 160 (163) T ss_pred ----HCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHCCC--CCHHHHHHHHCCHHHHHHH----HHHHHHHHHH T ss_conf ----22788178999999878635978899999982279--7878999884713899999----9999999975

HHsearch alignment for GI: 254780611 and conserved domain: TIGR02989