ID   RPOD_TREPA              Reviewed;         611 AA.
AC   O83506;
DT   15-DEC-1998, integrated into UniProtKB/Swiss-Prot.
DT   01-NOV-1998, sequence version 1.
DT   03-AUG-2022, entry version 130.
DE   RecName: Full=RNA polymerase sigma factor RpoD {ECO:0000255|HAMAP-Rule:MF_00963};
DE   AltName: Full=Major vegetative sigma factor;
DE   AltName: Full=Sigma-70 {ECO:0000255|HAMAP-Rule:MF_00963};
GN   Name=rpoD {ECO:0000255|HAMAP-Rule:MF_00963}; OrderedLocusNames=TP_0493;
OS   Treponema pallidum (strain Nichols).
OC   Bacteria; Spirochaetes; Spirochaetales; Treponemataceae; Treponema.
OX   NCBI_TaxID=243276;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=Nichols;
RX   PubMed=9665876; DOI=10.1126/science.281.5375.375;
RA   Fraser C.M., Norris S.J., Weinstock G.M., White O., Sutton G.G.,
RA   Dodson R.J., Gwinn M.L., Hickey E.K., Clayton R.A., Ketchum K.A.,
RA   Sodergren E., Hardham J.M., McLeod M.P., Salzberg S.L., Peterson J.D.,
RA   Khalak H.G., Richardson D.L., Howell J.K., Chidambaram M., Utterback T.R.,
RA   McDonald L.A., Artiach P., Bowman C., Cotton M.D., Fujii C., Garland S.A.,
RA   Hatch B., Horst K., Roberts K.M., Sandusky M., Weidman J.F., Smith H.O.,
RA   Venter J.C.;
RT   "Complete genome sequence of Treponema pallidum, the syphilis spirochete.";
RL   Science 281:375-388(1998).
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; AE000520; AAC65480.1; -; Genomic_DNA.
DR   PIR; E71318; E71318.
DR   RefSeq; WP_010881942.1; NC_021490.2.
DR   AlphaFoldDB; O83506; -.
DR   SMR; O83506; -.
DR   STRING; 243276.TPANIC_0493; -.
DR   EnsemblBacteria; AAC65480; AAC65480; TP_0493.
DR   GeneID; 57879015; -.
DR   KEGG; tpa:TP_0493; -.
DR   eggNOG; COG0568; Bacteria.
DR   HOGENOM; CLU_014793_7_2_12; -.
DR   OMA; RIEMYYE; -.
DR   OrthoDB; 1565734at2; -.
DR   Proteomes; UP000000811; 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   Gene3D; 1.10.220.120; -; 1.
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; IPR042189; RNA_pol_sigma_70_r1_1_sf.
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..611
FT                   /note="RNA polymerase sigma factor RpoD"
FT                   /id="PRO_0000093930"
FT   DNA_BIND        571..590
FT                   /note="H-T-H motif"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          377..447
FT                   /note="Sigma-70 factor domain-2"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          456..532
FT                   /note="Sigma-70 factor domain-3"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          545..598
FT                   /note="Sigma-70 factor domain-4"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   MOTIF           401..404
FT                   /note="Interaction with polymerase core subunit RpoC"
SQ   SEQUENCE   611 AA;  70902 MW;  D69EEB0B1ABB314C CRC64;
     MMELSRTPAV MRLLEYAREK KAITHDEVEN ILAHYGVETE ELLHDVLDML EQENIKVFSS
     EEEELEDEVF AGLKGPAADD GDGSFPLSTE RVRDKLCDSS RGARQNLLSN ARNIALDDPV
     KLYLRDIGQE KLLTAEQEVM LSKRMEEGEG IIKDIITQSG LLLPEFYHIG RSLSKKALAV
     LDPAESGRTR KEISEEMADR RRLKQAYGEV LRSLYPEMRH YMAMKKRLDE RGEPVTVLSS
     DEEVCKQRDK LLSCLQKVDL QLEEIDRFSR KFLDTARKIR EYKRRKDRHE KQLMIADLCD
     MRKIGRGLAV PRQRAKLEET LGMSADCIQE IYTQIQKVTR RLRRIEYDFE NTIDGILSMA
     RAIHRGHVML KKAKDKLINA NLRLVVSIAK KYTNRGLLFF DLVQEGNIGL IKAVEKFEYR
     KGYKFSTYAT WWIRQAITRS ISDQARTIRV PVHMIEQINK VTRESRQLLQ KFGREPSDEE
     IAQQLCWTVE KVKQVKSVAR EPISLETPIG EEEDSSLGDF VPDADVENPS RVTERVLLKE
     EVRSILSALP AREHEVLRMR FGLDGDYSQT LEEVGLYFDV TRERIRQIEA KALKRLRHPR
     HSRRLKDFLD S