RPOD_SALTY
ID RPOD_SALTY Reviewed; 615 AA.
AC P0A2E3; P07336; Q8Z3M4;
DT 01-APR-1988, integrated into UniProtKB/Swiss-Prot.
DT 01-APR-1988, sequence version 1.
DT 03-AUG-2022, entry version 111.
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=STM3211;
OS Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720).
OC Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales;
OC Enterobacteriaceae; Salmonella.
OX NCBI_TaxID=99287;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX PubMed=3005129; DOI=10.1016/0378-1119(85)90025-3;
RA Erickson B.D., Burton Z.F., Watanabe K.K., Burgess R.R.;
RT "Nucleotide sequence of the rpsU-dnaG-rpoD operon from Salmonella
RT typhimurium and a comparison of this sequence with the homologous operon of
RT Escherichia coli.";
RL Gene 40:67-78(1985).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=LT2 / SGSC1412 / ATCC 700720;
RX PubMed=11677609; DOI=10.1038/35101614;
RA McClelland M., Sanderson K.E., Spieth J., Clifton S.W., Latreille P.,
RA Courtney L., Porwollik S., Ali J., Dante M., Du F., Hou S., Layman D.,
RA Leonard S., Nguyen C., Scott K., Holmes A., Grewal N., Mulvaney E.,
RA Ryan E., Sun H., Florea L., Miller W., Stoneking T., Nhan M., Waterston R.,
RA Wilson R.K.;
RT "Complete genome sequence of Salmonella enterica serovar Typhimurium LT2.";
RL Nature 413:852-856(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 -!- SIMILARITY: Belongs to the sigma-70 factor family. RpoD/SigA subfamily.
CC {ECO:0000255|HAMAP-Rule:MF_00963}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAL22085.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; M14427; AAA27242.1; -; Genomic_DNA.
DR EMBL; AE006468; AAL22085.1; ALT_INIT; Genomic_DNA.
DR PIR; C23985; RNEBST.
DR RefSeq; NP_462126.3; NC_003197.2.
DR AlphaFoldDB; P0A2E3; -.
DR BMRB; P0A2E3; -.
DR SMR; P0A2E3; -.
DR STRING; 99287.STM3211; -.
DR PaxDb; P0A2E3; -.
DR EnsemblBacteria; AAL22085; AAL22085; STM3211.
DR GeneID; 1254734; -.
DR KEGG; stm:STM3211; -.
DR PATRIC; fig|99287.12.peg.3407; -.
DR HOGENOM; CLU_014793_7_0_6; -.
DR OMA; RDAKKEM; -.
DR PhylomeDB; P0A2E3; -.
DR Proteomes; UP000001014; 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 3: Inferred from homology;
KW Cytoplasm; DNA-binding; Reference proteome; Sigma factor; Transcription;
KW Transcription regulation.
FT CHAIN 1..615
FT /note="RNA polymerase sigma factor RpoD"
FT /id="PRO_0000093887"
FT DNA_BIND 575..594
FT /note="H-T-H motif"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 177..215
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 381..451
FT /note="Sigma-70 factor domain-2"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 460..536
FT /note="Sigma-70 factor domain-3"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 549..602
FT /note="Sigma-70 factor domain-4"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT MOTIF 405..408
FT /note="Interaction with polymerase core subunit RpoC"
FT COMPBIAS 189..212
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 615 AA; 70531 MW; 114E8D4236A3D59A CRC64;
MEQNPQSQLK LLVTRGKEQG YLTYAEVNDH LPEDIVDSDQ IEDIIQMIND MGIQVMEEAP
DADDLLLAEN TTSTDEDAEE AAAQVLSSVE SEIGRTTDPV RMYMREMGTV ELLTREGEID
IAKRIEDGIN QVQCSVAEYP EAITYLLEQY DRVEAEEARL SDLITGFVDP NAEEEMAPTA
THVGSELSQE DLDDDEDEDE EDGDDDAADD DNSIDPELAR EKFAELRAQY VVTRDTIKAK
GRSHAAAQEE ILKLSEVFKQ FRLVPKQFDY LVNSMRVMMD RVRTQERLIM KLCVEQCKMP
KKNFITLFTG NETSETWFNA AIAMNKPWSE KLHDVAEEVQ RCLQKLRQIE EETGLTIEQV
KDINRRMSIG EAKARRAKKE MVEANLRLVI SIAKKYTNRG LQFLDLIQEG NIGLMKAVDK
FEYRRGYKFS TYATWWIRQA ITRSIADQAR TIRIPVHMIE TINKLNRISR QMLQEMGREP
TPEELAERML MPEDKIRKVL KIAKEPISME TPIGDDEDSH LGDFIEDTTL ELPLDSATTE
SLRAATHDVL AGLTAREAKV LRMRFGIDMN TDHTLEEVGK QFDVTRERIR QIEAKALRKL
RHPSRSEVLR SFLDD
