RPOD_RHOCB
ID RPOD_RHOCB Reviewed; 674 AA.
AC D5AQI9; P46400;
DT 28-JUN-2011, integrated into UniProtKB/Swiss-Prot.
DT 15-JUN-2010, sequence version 1.
DT 03-AUG-2022, entry version 69.
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};
GN OrderedLocusNames=RCAP_rcc03054;
OS Rhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003).
OC Bacteria; Proteobacteria; Alphaproteobacteria; Rhodobacterales;
OC Rhodobacteraceae; Rhodobacter.
OX NCBI_TaxID=272942;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=ATCC BAA-309 / NBRC 16581 / SB1003;
RA Zheng S., Scappino L., Haselkorn R.;
RL Submitted (MAY-1995) to the EMBL/GenBank/DDBJ databases.
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC BAA-309 / NBRC 16581 / SB1003;
RX PubMed=20418398; DOI=10.1128/jb.00366-10;
RA Strnad H., Lapidus A., Paces J., Ulbrich P., Vlcek C., Paces V.,
RA Haselkorn R.;
RT "Complete genome sequence of the photosynthetic purple nonsulfur bacterium
RT Rhodobacter capsulatus SB 1003.";
RL J. Bacteriol. 192:3545-3546(2010).
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; U28162; AAA70413.1; -; Genomic_DNA.
DR EMBL; CP001312; ADE86778.1; -; Genomic_DNA.
DR RefSeq; WP_013068751.1; NC_014034.1.
DR AlphaFoldDB; D5AQI9; -.
DR SMR; D5AQI9; -.
DR STRING; 272942.RCAP_rcc03054; -.
DR EnsemblBacteria; ADE86778; ADE86778; RCAP_rcc03054.
DR GeneID; 31491844; -.
DR KEGG; rcp:RCAP_rcc03054; -.
DR eggNOG; COG0568; Bacteria.
DR HOGENOM; CLU_014793_7_1_5; -.
DR OMA; HDSIWEM; -.
DR OrthoDB; 1565734at2; -.
DR Proteomes; UP000002361; 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..674
FT /note="RNA polymerase sigma factor RpoD"
FT /id="PRO_0000410702"
FT DNA_BIND 634..653
FT /note="H-T-H motif"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 214..252
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 440..510
FT /note="Sigma-70 factor domain-2"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 519..595
FT /note="Sigma-70 factor domain-3"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 608..661
FT /note="Sigma-70 factor domain-4"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT MOTIF 464..467
FT /note="Interaction with polymerase core subunit RpoC"
SQ SEQUENCE 674 AA; 75958 MW; 02FC042B133BE098 CRC64;
MAAKDIDDTK PDTAADEDAS FDMSQAAVKR MIGEAKERGY ITIDQLNAVM PPETVSGEQI
EDVMSMLSEM GINVVEGEEV EESEGGEVVE TGSGSREIAV AGAAGETLDR TDDPVRMYLR
EMGSVELLSR EGEIAIAKRI EAGRNTMIAG LCESPLTFQA ITIWRDELLS EEILLRDVID
LEATFGRSLD GDEGMEGMEG IEGPVVEGLD LETAEGAAPA ARRPASDEPE YDADGNPISR
IDEEEDDDDS SNMSLAAMEA ALKPKVLETL ELIARDYAKL AEMQDLRMSA TLNEDGTFSV
AEEAAYQKLR SEIVLLVNEL HLHNNRIEAL IDQLYGINRK IMSIDSGMVK LADAARINRR
EFIDEYRGYE LDPTWMDRMS AKPARAWVTL FEKSRDKVED LRHEMAQVGQ YVGVDISEFR
RIVNQVQKGE KEARQAKKEM VEANLRLVIS IAKKYTNRGL QFLDLIQEGN IGLMKAVDKF
EYRRGYKFST YATWWIRQAI TRSIADQART IRIPVHMIET INKLVRTGRQ MLHEIGREPT
PEELAEKLQM PLEKVRKVMK IAKEPISLET PIGDEEDSQL GDFIEDKNAI LPLDSAIQEN
LKETTTRVLA SLTPREERVL RMRFGIGMNT DHTLEEVGQQ FSVTRERIRQ IEAKALRKLK
HPSRSRKLRS FLDQ
