ID   RPOD_HELPJ              Reviewed;         681 AA.
AC   Q9ZMY3;
DT   01-DEC-2000, integrated into UniProtKB/Swiss-Prot.
DT   01-MAY-1999, sequence version 1.
DT   03-AUG-2022, entry version 128.
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=jhp_0081;
OS   Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99).
OC   Bacteria; Proteobacteria; Epsilonproteobacteria; Campylobacterales;
OC   Helicobacteraceae; Helicobacter.
OX   NCBI_TaxID=85963;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=J99 / ATCC 700824;
RX   PubMed=9923682; DOI=10.1038/16495;
RA   Alm R.A., Ling L.-S.L., Moir D.T., King B.L., Brown E.D., Doig P.C.,
RA   Smith D.R., Noonan B., Guild B.C., deJonge B.L., Carmel G., Tummino P.J.,
RA   Caruso A., Uria-Nickelsen M., Mills D.M., Ives C., Gibson R., Merberg D.,
RA   Mills S.D., Jiang Q., Taylor D.E., Vovis G.F., Trust T.J.;
RT   "Genomic sequence comparison of two unrelated isolates of the human gastric
RT   pathogen Helicobacter pylori.";
RL   Nature 397:176-180(1999).
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; AE001439; AAD05665.1; -; Genomic_DNA.
DR   PIR; D71976; D71976.
DR   AlphaFoldDB; Q9ZMY3; -.
DR   SMR; Q9ZMY3; -.
DR   STRING; 85963.jhp_0081; -.
DR   EnsemblBacteria; AAD05665; AAD05665; jhp_0081.
DR   KEGG; hpj:jhp_0081; -.
DR   PATRIC; fig|85963.30.peg.952; -.
DR   eggNOG; COG0568; Bacteria.
DR   OMA; IYAYKDA; -.
DR   Proteomes; UP000000804; 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; 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; 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; Sigma factor; Transcription;
KW   Transcription regulation.
FT   CHAIN           1..681
FT                   /note="RNA polymerase sigma factor RpoD"
FT                   /id="PRO_0000093891"
FT   DNA_BIND        641..660
FT                   /note="H-T-H motif"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          1..60
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          239..270
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          446..516
FT                   /note="Sigma-70 factor domain-2"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          525..601
FT                   /note="Sigma-70 factor domain-3"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   REGION          614..668
FT                   /note="Sigma-70 factor domain-4"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT   MOTIF           470..473
FT                   /note="Interaction with polymerase core subunit RpoC"
SQ   SEQUENCE   681 AA;  78763 MW;  4650F943828457F3 CRC64;
     MKKKANEEKA PKRAKQEAKT EATQENKAKE SNKENKNNKA KEGKIKEAKT KESKVKETAK
     EPIPVKKLSF NEALEELFAN SLSDCVSYES IIQISAKVPT LAQIKKIKEL CQKYQKKLVS
     SSEYAKKLNA IDKIKNTEEK QKVLDEELED GYDFLKEKDF LEWSRSDSPV RMYLREMGDI
     KLLSKDEEIE LSKQIRLGED IILDAICSVP YLIDFIYAYK DALINRERRV KELFRSFDDD
     DENSVSDPKK DDDSEEDEEN EERKKVVSEK DKKRVEKVQE SFKALDKAKK EWLKALEAPI
     DEKEDELVRS LTLAYKRQTL KDRLYDLEPT SKLINELVKT METTLKSGDG FEKELKRLEY
     KLPLFNDTLI ANHKKILANI TNMTKEDIIA QVPEATMVSV YMDLKKLFLT KEASEEGFDL
     APNKLKEILE QIKRGKLISD RAKNKMAKSN LRLVVSIAKR FTSRGLPFLD LIQEGNIGLM
     KAVDKFEHEK GFKFSTYATW WIKQAISRAI ADQARTIRIP IHMIDTINRI NKVMRKHIQE
     TGKEPDLEVV AEEVGLSLDK VKNVIKVTKE PISLETPVGN DDDGKFGDFV EDKNIVSSID
     HIMREDLKAQ IESVLDQLNE REKAVIRMRF GLLDDESDRT LEEIGKELNV TRERVRQIES
     SAIKKLRSPQ YGRILRNYLR I