RPOD_RHIEC
ID RPOD_RHIEC Reviewed; 685 AA.
AC Q2K619;
DT 28-JUN-2011, integrated into UniProtKB/Swiss-Prot.
DT 07-MAR-2006, sequence version 1.
DT 03-AUG-2022, entry version 113.
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};
DE AltName: Full=Sigma-A;
GN Name=rpoD {ECO:0000255|HAMAP-Rule:MF_00963}; Synonyms=sigA;
GN OrderedLocusNames=RHE_CH02950;
OS Rhizobium etli (strain CFN 42 / ATCC 51251).
OC Bacteria; Proteobacteria; Alphaproteobacteria; Hyphomicrobiales;
OC Rhizobiaceae; Rhizobium/Agrobacterium group; Rhizobium.
OX NCBI_TaxID=347834;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=CFN 42 / ATCC 51251;
RX PubMed=16505379; DOI=10.1073/pnas.0508502103;
RA Gonzalez V., Santamaria R.I., Bustos P., Hernandez-Gonzalez I.,
RA Medrano-Soto A., Moreno-Hagelsieb G., Janga S.C., Ramirez M.A.,
RA Jimenez-Jacinto V., Collado-Vides J., Davila G.;
RT "The partitioned Rhizobium etli genome: genetic and metabolic redundancy in
RT seven interacting replicons.";
RL Proc. Natl. Acad. Sci. U.S.A. 103:3834-3839(2006).
RN [2]
RP FUNCTION AS A SIGMA FACTOR, DNA-BINDING, AND INDUCTION.
RC STRAIN=CFN 42 / ATCC 51251;
RX PubMed=16528104; DOI=10.1093/nar/gkl023;
RA Ramirez-Romero M.A., Masulis I., Cevallos M.A., Gonzalez V., Davila G.;
RT "The Rhizobium etli sigma70 (SigA) factor recognizes a lax consensus
RT promoter.";
RL Nucleic Acids Res. 34:1470-1480(2006).
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. The sigma-70 promoter consensus for this organism
CC is 5'-CTTGAC-N(16-23)-TATNNT-3'. {ECO:0000255|HAMAP-Rule:MF_00963,
CC ECO:0000269|PubMed:16528104}.
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 -!- INDUCTION: Expressed during exponential and stationary phase growth,
CC under autologous control. {ECO:0000269|PubMed:16528104}.
CC -!- SIMILARITY: Belongs to the sigma-70 factor family. RpoD/SigA subfamily.
CC {ECO:0000255|HAMAP-Rule:MF_00963}.
CC ---------------------------------------------------------------------------
CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC ---------------------------------------------------------------------------
DR EMBL; CP000133; ABC91717.1; -; Genomic_DNA.
DR RefSeq; WP_011426193.1; NC_007761.1.
DR AlphaFoldDB; Q2K619; -.
DR SMR; Q2K619; -.
DR STRING; 347834.RHE_CH02950; -.
DR EnsemblBacteria; ABC91717; ABC91717; RHE_CH02950.
DR GeneID; 58690422; -.
DR GeneID; 61481384; -.
DR KEGG; ret:RHE_CH02950; -.
DR eggNOG; COG0568; Bacteria.
DR HOGENOM; CLU_014793_7_0_5; -.
DR OMA; IYAYKDA; -.
DR Proteomes; UP000001936; 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..685
FT /note="RNA polymerase sigma factor RpoD"
FT /id="PRO_0000410983"
FT DNA_BIND 645..664
FT /note="H-T-H motif"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 1..26
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 83..132
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 206..263
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 451..521
FT /note="Sigma-70 factor domain-2"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 530..606
FT /note="Sigma-70 factor domain-3"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT REGION 619..672
FT /note="Sigma-70 factor domain-4"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00963"
FT MOTIF 475..478
FT /note="Interaction with polymerase core subunit RpoC"
FT COMPBIAS 83..103
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 217..243
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 246..263
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 685 AA; 77201 MW; 2D4776F1EFC4E025 CRC64;
MATKVKENED AEVERDGASD GPLLDLSDDA VKKMIKAAKK RGYVTMDELN AVLPSEEVTS
EQIEDTMSML SDMGINVIED EEAEEAGASG GGDDDDAGGD EDSEGGELAP SAGTALATAK
KKEPTDRTDD PVRMYLREMG SVELLSREGE IAIAKRIEAG RETMIAGLCE SPLTFQALII
WRDELNEGTT LLREIIDLET TYSGPEAKAA PQFQSPEKIE ADRKAAEEKE KTRRARSGDD
DITDVGGEGL PPEEEEEDED ESNLSLAAME AELRPQVMET LDIIAETYKK LRKLQDQQVE
QRLAATGTLS SAQERRYKEL KDELIKAVKS LSLNQNRIDA LVEQLYDINK RLVQNEGRLL
RLAESYGVKR DSFLEQYQGA ELDPNWMKSI GNLAARGWKE FAKAENTTIR DIRQEIQNLA
TETGISISEF RRIVHMVQKG EREARIAKKE MVEANLRLVI SIAKKYTNRG LQFLDLIQEG
NIGLMKAVDK FEYRRGYKFS TYATWWIRQA ITRSIADQAR TIRIPVHMIE TINKIVRTSR
QMLHEIGREP TPEELAEKLA MPLEKVRKVL KIAKEPISLE TPVGDEEDSH LGDFIEDKNA
LLPIDAAIQA NLRETTTRVL ASLTPREERV LRMRFGIGMN TDHTLEEVGQ QFSVTRERIR
QIEAKALRKL KHPSRSRKLR SFLDS
