ID   RPOD_BORBU              Reviewed;         631 AA.
AC   P52323;
DT   01-OCT-1996, integrated into UniProtKB/Swiss-Prot.
DT   15-DEC-1998, sequence version 2.
DT   03-AUG-2022, entry version 139.
DE   RecName: Full=RNA polymerase sigma factor RpoD {ECO:0000255|HAMAP-Rule:MF_00963};
DE   AltName: Full=Sigma-70 {ECO:0000255|HAMAP-Rule:MF_00963};
GN   Name=rpoD {ECO:0000255|HAMAP-Rule:MF_00963}; OrderedLocusNames=BB_0712;
OS   Borreliella burgdorferi (strain ATCC 35210 / DSM 4680 / CIP 102532 / B31)
OS   (Borrelia burgdorferi).
OC   Bacteria; Spirochaetes; Spirochaetales; Borreliaceae; Borreliella.
OX   NCBI_TaxID=224326;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=ATCC 35210 / DSM 4680 / CIP 102532 / B31;
RX   PubMed=8626058; DOI=10.1016/0378-1119(95)00760-1;
RA   Tsai C.-P., Pan M.-J.;
RT   "Sequence of a gene encoding a putative primary sigma factor from Borrelia
RT   burgdorferi strain B31.";
RL   Gene 168:123-124(1996).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC 35210 / DSM 4680 / CIP 102532 / B31;
RX   PubMed=9403685; DOI=10.1038/37551;
RA   Fraser C.M., Casjens S., Huang W.M., Sutton G.G., Clayton R.A.,
RA   Lathigra R., White O., Ketchum K.A., Dodson R.J., Hickey E.K., Gwinn M.L.,
RA   Dougherty B.A., Tomb J.-F., Fleischmann R.D., Richardson D.L.,
RA   Peterson J.D., Kerlavage A.R., Quackenbush J., Salzberg S.L., Hanson M.,
RA   van Vugt R., Palmer N., Adams M.D., Gocayne J.D., Weidman J.F.,
RA   Utterback T.R., Watthey L., McDonald L.A., Artiach P., Bowman C.,
RA   Garland S.A., Fujii C., Cotton M.D., Horst K., Roberts K.M., Hatch B.,
RA   Smith H.O., Venter J.C.;
RT   "Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi.";
RL   Nature 390:580-586(1997).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 165-614.
RC   STRAIN=ATCC 53899 / 297;
RX   PubMed=9084142; DOI=10.1111/j.1574-6968.1997.tb10281.x;
RA   Pan M.-J., Tsai C.-P., Yeh J.C.;
RT   "Sequence diversity of a gene encoding a putative primary sigma factor
RT   among Borrelia burgdorferi sensu lato strains.";
RL   FEMS Microbiol. Lett. 148:153-158(1997).
CC   -!- FUNCTION: Sigma factors are initiation factors that promote the
CC       attachment of RNA polymerase to specific initiation sites and are then
CC       released. This sigma factor is the primary sigma factor during
CC       exponential growth. {ECO:0000255|HAMAP-Rule:MF_00963}.
CC   -!- SUBUNIT: Interacts transiently with the RNA polymerase catalytic core.
CC       {ECO:0000255|HAMAP-Rule:MF_00963}.
CC   -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000255|HAMAP-Rule:MF_00963}.
CC   -!- SIMILARITY: Belongs to the sigma-70 factor family. RpoD/SigA subfamily.
CC       {ECO:0000255|HAMAP-Rule:MF_00963}.
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DR   EMBL; U17591; AAC44104.1; -; Genomic_DNA.
DR   EMBL; AE000783; AAC67061.1; -; Genomic_DNA.
DR   EMBL; U68006; AAC45100.1; -; Genomic_DNA.
DR   PIR; G70188; G70188.
DR   RefSeq; NP_212846.1; NC_001318.1.
DR   RefSeq; WP_002656292.1; NC_001318.1.
DR   AlphaFoldDB; P52323; -.
DR   SMR; P52323; -.
DR   STRING; 224326.BB_0712; -.
DR   PRIDE; P52323; -.
DR   EnsemblBacteria; AAC67061; AAC67061; BB_0712.
DR   GeneID; 56567522; -.
DR   KEGG; bbu:BB_0712; -.
DR   PATRIC; fig|224326.49.peg.1103; -.
DR   HOGENOM; CLU_014793_7_2_12; -.
DR   OMA; RIEMYYE; -.
DR   Proteomes; UP000001807; Chromosome.
DR   GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0016987; F:sigma factor activity; IEA:UniProtKB-UniRule.
DR   GO; GO:0006352; P:DNA-templated transcription, initiation; IEA:UniProtKB-UniRule.
DR   Gene3D; 1.10.10.10; -; 2.
DR   HAMAP; MF_00963; Sigma70_RpoD_SigA; 1.
DR   InterPro; IPR014284; RNA_pol_sigma-70_dom.
DR   InterPro; IPR000943; RNA_pol_sigma70.
DR   InterPro; IPR009042; RNA_pol_sigma70_r1_2.
DR   InterPro; IPR007627; RNA_pol_sigma70_r2.
DR   InterPro; IPR007624; RNA_pol_sigma70_r3.
DR   InterPro; IPR007630; RNA_pol_sigma70_r4.
DR   InterPro; IPR007127; RNA_pol_sigma_70_r1_1.
DR   InterPro; IPR013325; RNA_pol_sigma_r2.
DR   InterPro; IPR013324; RNA_pol_sigma_r3/r4-like.
DR   InterPro; IPR012760; RNA_pol_sigma_RpoD_C.
DR   InterPro; IPR028630; Sigma70_RpoD.
DR   InterPro; IPR036388; WH-like_DNA-bd_sf.
DR   Pfam; PF03979; Sigma70_r1_1; 1.
DR   Pfam; PF00140; Sigma70_r1_2; 1.
DR   Pfam; PF04542; Sigma70_r2; 1.
DR   Pfam; PF04539; Sigma70_r3; 1.
DR   Pfam; PF04545; Sigma70_r4; 1.
DR   PRINTS; PR00046; SIGMA70FCT.
DR   SUPFAM; SSF88659; SSF88659; 2.
DR   SUPFAM; SSF88946; SSF88946; 1.
DR   TIGRFAMs; TIGR02393; RpoD_Cterm; 1.
DR   TIGRFAMs; TIGR02937; sigma70-ECF; 1.
DR   PROSITE; PS00715; SIGMA70_1; 1.
DR   PROSITE; PS00716; SIGMA70_2; 1.
PE   3: Inferred from homology;
KW   Cytoplasm; DNA-binding; Reference proteome; Sigma factor; Transcription;
KW   Transcription regulation.
FT   CHAIN           1..631
FT                   /note="RNA polymerase sigma factor RpoD"
FT                   /id="PRO_0000093876"
FT   DNA_BIND        589..608
FT                   /note="H-T-H motif"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          395..465
FT                   /note="Sigma-70 factor domain-2"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          474..550
FT                   /note="Sigma-70 factor domain-3"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          563..616
FT                   /note="Sigma-70 factor domain-4"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   MOTIF           419..422
FT                   /note="Interaction with polymerase core subunit RpoC"
SQ   SEQUENCE   631 AA;  73643 MW;  BD565AB7D8F44796 CRC64;
     MSDLEKKYSK LIEGIITHLG DRKSLSFSEL SNLLPDDILE PEILDCICSV LEDRGIRLVN
     KISELDLVVS EDGNDEEEEV EIESDRNFMI LDDGFQSDEE DIDIDVKLDD CDEEDISVKD
     DLGSGYIKGN VLKDSHSEDP IKLYLKEIGK EFLLTGNQEV ELAKQMDSGE SIIENILKNE
     GLVIENYYNL VNTIYSRMER EEFFKREKDK DKESSPDYYN KKKRIASFYK IPLKPIQDRL
     ISYVDNKHRV YDLGGDIFEK NLKKERLALK ELLRDIPLYQ EELRIFSDDY IDSANKIKDL
     QRQQRIILSR LKIEKIRDLR VLGRDLTIAE KKIEIEKSLK LKEDAIKEQI TEAQLAQKEL
     ERIEMYYEYP TDKIISMSEE IAKGKQMMQH AKDQLIKANL RLVVSIAKKY ANRGLHFFDL
     VQEGNIGLIK AVEKFEYKRG FKFSTYATWW IRQAITRSIS DQARTIRVPV HMIEQINRLN
     RETRYLIQVL GKDPTDEELS DRLGWELKKV KTVKSVSREP VSLETPIGEE EDSVLSDFIE
     DKAIKNPANH TSFVVLQDQI RAILGTLPER EQEVVKMRFG LEDGYSLTLE EVGLHFNVTR
     ERIRQIESKA LRRLKNPKKT QKLKDYLEDL N