ID A0A172Y754_9CAUL Unreviewed; 640 AA.
AC A0A172Y754;
DT 07-SEP-2016, integrated into UniProtKB/TrEMBL.
DT 07-SEP-2016, sequence version 1.
DT 18-JUN-2025, entry version 38.
DE RecName: Full=RNA polymerase sigma factor RpoD {ECO:0000256|HAMAP-Rule:MF_00963};
DE AltName: Full=Sigma-70 {ECO:0000256|HAMAP-Rule:MF_00963};
GN Name=rpoD {ECO:0000256|HAMAP-Rule:MF_00963};
GN ORFNames=DA69_09945 {ECO:0000313|EMBL:ANF55043.1};
OS Brevundimonas naejangsanensis.
OC Bacteria; Pseudomonadati; Pseudomonadota; Alphaproteobacteria;
OC Caulobacterales; Caulobacteraceae; Brevundimonas.
OX NCBI_TaxID=588932 {ECO:0000313|EMBL:ANF55043.1, ECO:0000313|Proteomes:UP000077603};
RN [1] {ECO:0000313|EMBL:ANF55043.1, ECO:0000313|Proteomes:UP000077603}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=B1 {ECO:0000313|EMBL:ANF55043.1,
RC ECO:0000313|Proteomes:UP000077603};
RX PubMed=24903872;
RA Su H., Zhang T., Bao M., Jiang Y., Wang Y., Tan T.;
RT "Genome Sequence of a Promising Hydrogen-Producing Facultative Anaerobic
RT Bacterium, Brevundimonas naejangsanensis Strain B1.";
RL Genome Announc. 2:0-0(2014).
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:0000256|HAMAP-Rule:MF_00963}.
CC -!- SUBUNIT: Interacts transiently with the RNA polymerase catalytic core.
CC {ECO:0000256|HAMAP-Rule:MF_00963}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000256|HAMAP-Rule:MF_00963}.
CC -!- SIMILARITY: Belongs to the sigma-70 factor family. RpoD/SigA subfamily.
CC {ECO:0000256|HAMAP-Rule:MF_00963}.
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DR EMBL; CP015614; ANF55043.1; -; Genomic_DNA.
DR RefSeq; WP_024353668.1; NZ_CP015614.1.
DR AlphaFoldDB; A0A172Y754; -.
DR STRING; 588932.DA69_09945; -.
DR GeneID; 78117561; -.
DR KEGG; bne:DA69_09945; -.
DR eggNOG; COG0568; Bacteria.
DR OrthoDB; 9809557at2; -.
DR Proteomes; UP000077603; 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 CDD; cd06171; Sigma70_r4; 1.
DR FunFam; 1.10.10.10:FF:000002; RNA polymerase sigma factor SigA; 1.
DR FunFam; 1.10.10.10:FF:000004; RNA polymerase sigma factor SigA; 1.
DR FunFam; 1.10.601.10:FF:000001; RNA polymerase sigma factor SigA; 1.
DR Gene3D; 1.10.601.10; RNA Polymerase Primary Sigma Factor; 1.
DR Gene3D; 1.10.220.120; Sigma-70 factor, region 1.1; 1.
DR Gene3D; 1.10.10.10; Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain; 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; 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; IPR050239; Sigma-70_RNA_pol_init_factors.
DR InterPro; IPR028630; Sigma70_RpoD.
DR InterPro; IPR036388; WH-like_DNA-bd_sf.
DR NCBIfam; NF004208; PRK05658.1; 1.
DR NCBIfam; TIGR02393; RpoD_Cterm; 1.
DR NCBIfam; TIGR02937; sigma70-ECF; 1.
DR PANTHER; PTHR30603; RNA POLYMERASE SIGMA FACTOR RPO; 1.
DR PANTHER; PTHR30603:SF60; RNA POLYMERASE SIGMA FACTOR RPOD; 1.
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; SSF88946; Sigma2 domain of RNA polymerase sigma factors; 1.
DR SUPFAM; SSF88659; Sigma3 and sigma4 domains of RNA polymerase sigma factors; 2.
DR PROSITE; PS00715; SIGMA70_1; 1.
DR PROSITE; PS00716; SIGMA70_2; 1.
PE 3: Inferred from homology;
KW Coiled coil {ECO:0000256|SAM:Coils};
KW Cytoplasm {ECO:0000256|ARBA:ARBA00022490, ECO:0000256|HAMAP-Rule:MF_00963};
KW DNA-binding {ECO:0000256|ARBA:ARBA00023125, ECO:0000256|HAMAP-
KW Rule:MF_00963}; Reference proteome {ECO:0000313|Proteomes:UP000077603};
KW Sigma factor {ECO:0000256|ARBA:ARBA00023082, ECO:0000256|HAMAP-
KW Rule:MF_00963};
KW Transcription {ECO:0000256|ARBA:ARBA00023163, ECO:0000256|HAMAP-
KW Rule:MF_00963};
KW Transcription regulation {ECO:0000256|ARBA:ARBA00023015, ECO:0000256|HAMAP-
KW Rule:MF_00963}.
FT DOMAIN 430..443
FT /note="RNA polymerase sigma-70"
FT /evidence="ECO:0000259|PROSITE:PS00715"
FT DOMAIN 599..625
FT /note="RNA polymerase sigma-70"
FT /evidence="ECO:0000259|PROSITE:PS00716"
FT DNA_BIND 600..619
FT /note="H-T-H motif"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT REGION 186..218
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 406..476
FT /note="Sigma-70 factor domain-2"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT REGION 485..561
FT /note="Sigma-70 factor domain-3"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT REGION 574..627
FT /note="Sigma-70 factor domain-4"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT COILED 385..412
FT /evidence="ECO:0000256|SAM:Coils"
FT MOTIF 430..433
FT /note="Interaction with polymerase core subunit RpoC"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT COMPBIAS 203..217
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 640 AA; 71902 MW; 600093EE26A86FE3 CRC64;
MSAQTETQDA ETNTDGPLLD LTDAGVKKFI RQAKTRGYVT MEELNKVLPS EEVTPDQIED
ILAMLSEMGV NVVEAEEDAA EATGTDVAAA AETSVAEAPA KSAYDRTDDP VRMYLREMGT
VELLSREGEI AIAKRIEAGR DAMISGLCES ALTFEAIMVW REELANNRIL LREVIDLDAT
YGILNPSSLP HNQPAPAQPT GEPDGDGEED DDEDFDDGGA MSISALEAEL RDGVMEVLDA
IASDFGEFRK LQDKLVEARL KGDVLTAKDQ KTYESLSTAI SDRLKTMKLN NARIEALVEQ
LYAINKRLIG LEGRLLRLAD GYGISRPEFL KAYFGSETDP NWAERIKEMG VRWTKFSENE
TSQIGDIRSR IAAVASEAGV PIDDYRRIVQ MVQKGEREAR QAKKEMVEAN LRLVISIAKK
YTNRGLQFLD LIQEGNIGLM KAVDKFEYRR GYKFSTYATW WIRQAITRSI ADQARTIRIP
VHMIETINKI VRTQRQMLHE IGREATPEEL AERLAMPLEK VRKVLKIAKE PISLETPIGD
EEDSHLGDFI EDKNAILPID AAIQSNLRET TTRVLASLTP REERVLRMRF GIGMNTDHTL
EEVGQQFSVT RERIRQIEAK ALRKLKHPSR SRKLRSFLDS
//
