RPOD_COXBU
ID RPOD_COXBU Reviewed; 698 AA.
AC Q83BB6; Q9KH26;
DT 05-FEB-2008, integrated into UniProtKB/Swiss-Prot.
DT 01-JUN-2003, sequence version 1.
DT 03-AUG-2022, entry version 116.
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=CBU_1596;
OS Coxiella burnetii (strain RSA 493 / Nine Mile phase I).
OC Bacteria; Proteobacteria; Gammaproteobacteria; Legionellales; Coxiellaceae;
OC Coxiella.
OX NCBI_TaxID=227377;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=RSA 493 / Nine Mile phase I;
RX PubMed=12704232; DOI=10.1073/pnas.0931379100;
RA Seshadri R., Paulsen I.T., Eisen J.A., Read T.D., Nelson K.E., Nelson W.C.,
RA Ward N.L., Tettelin H., Davidsen T.M., Beanan M.J., DeBoy R.T.,
RA Daugherty S.C., Brinkac L.M., Madupu R., Dodson R.J., Khouri H.M.,
RA Lee K.H., Carty H.A., Scanlan D., Heinzen R.A., Thompson H.A., Samuel J.E.,
RA Fraser C.M., Heidelberg J.F.;
RT "Complete genome sequence of the Q-fever pathogen, Coxiella burnetii.";
RL Proc. Natl. Acad. Sci. U.S.A. 100:5455-5460(2003).
RN [2]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 289-698, AND DEVELOPMENTAL STAGE.
RC STRAIN=RSA 493 / Nine Mile phase I;
RX PubMed=11447163; DOI=10.1128/iai.69.8.4874-4883.2001;
RA Seshadri R., Samuel J.E.;
RT "Characterization of a stress-induced alternate sigma factor, RpoS, of
RT Coxiella burnetii and its expression during the development cycle.";
RL Infect. Immun. 69:4874-4883(2001).
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 -!- DEVELOPMENTAL STAGE: Found in both the large cell variant (LCV) and
CC small cell variant (SCV) stage (at protein level). LCVs are more
CC metabolically active than SCVs. {ECO:0000269|PubMed:11447163}.
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; AE016828; AAO91093.1; -; Genomic_DNA.
DR EMBL; AF273254; AAF82776.1; -; Genomic_DNA.
DR RefSeq; NP_820579.1; NC_002971.3.
DR RefSeq; WP_010958322.1; NC_002971.4.
DR AlphaFoldDB; Q83BB6; -.
DR SMR; Q83BB6; -.
DR STRING; 227377.CBU_1596; -.
DR EnsemblBacteria; AAO91093; AAO91093; CBU_1596.
DR GeneID; 1209506; -.
DR KEGG; cbu:CBU_1596; -.
DR PATRIC; fig|227377.7.peg.1598; -.
DR eggNOG; COG0568; Bacteria.
DR HOGENOM; CLU_014793_7_2_6; -.
DR OMA; RDAKKEM; -.
DR Proteomes; UP000002671; 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; IPR007631; RNA_pol_sigma_70_non-ess.
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; PF04546; Sigma70_ner; 1.
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 1: Evidence at protein level;
KW Cytoplasm; DNA-binding; Reference proteome; Sigma factor; Transcription;
KW Transcription regulation.
FT CHAIN 1..698
FT /note="RNA polymerase sigma factor RpoD"
FT /id="PRO_0000318557"
FT DNA_BIND 656..675
FT /note="H-T-H motif"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 1..88
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 259..298
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 462..532
FT /note="Sigma-70 factor domain-2"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 541..617
FT /note="Sigma-70 factor domain-3"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 630..683
FT /note="Sigma-70 factor domain-4"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT MOTIF 486..489
FT /note="Interaction with polymerase core subunit RpoC"
FT COMPBIAS 1..42
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 629..640
FT /note="EILSTLTPREAK -> RNFVYAYPARSQ (in Ref. 2; AAF82776)"
FT /evidence="ECO:0000305"
FT CONFLICT 661..663
FT /note="KQF -> NNS (in Ref. 2; AAF82776)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 698 AA; 79553 MW; 20F218C132B5F2AB CRC64;
MPSRKKKSSV TKTKKKTTGK KARVTAKAKP SVKSKLKTVK RAPAKPKSVT VAKTKSKKEK
AKVVSQPLPK TAEKKPSAPP SETQQPKIGE NAAESQRLGF GALLEEAKNK GYLVHEDLIN
LLPNDYADPS QMEGIIGRLT EMGIKVFEIP PDADSLLLEE DTQSDDDEIN EDVAEVLATE
TRTTDPVRMY MREMGSVELL TREGEIVIAK RIEEGIRQVM GAVVQYPELI EKFIKEYDTI
VATEGRLSDL LIGFFDEEES TASPVAPEAR DKEAETSDED DGGEGGSDEF GESGPDPLIT
QQHMEELKKL YGRYQNAIKR YGKKAPATLK HQKALAELFS TFKLSIKQFN RLTGQLRRML
RAARAQERLI MSYCVVKAKT PRKKFIASFP HNETNMKWLE QYKNENKEQA KRLEKYSKEI
YRAQRNLAQL EEQNNLNIQE IKEINRRVAI GEAKSRRAKK EMIEANLRLV ISIAKKYTNR
GLQFLDLIQE GNIGLMKAVD KFEYRRGYKF STYATWWIRQ AITRSIADQA RTIRIPVHMI
ETINKLNRIS RQILQETGIE ATPEELGRRM DMPEEKVRKV LKIAKEPISM ETPIGEDEDS
NLGDFIEDIN MESPVDFATS AGLMEATREI LSTLTPREAK VLRMRFGIDM NTDHTLEEVG
KQFDVTRERI RQIEAKALRK LRHPSRAEKL HSFIEVEE
