ID A0A5B7YG34_9ALTE Unreviewed; 612 AA.
AC A0A5B7YG34;
DT 13-NOV-2019, integrated into UniProtKB/TrEMBL.
DT 13-NOV-2019, sequence version 1.
DT 18-JUN-2025, entry version 23.
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 ECO:0000313|EMBL:QCZ94564.1};
GN ORFNames=FBQ74_14295 {ECO:0000313|EMBL:QCZ94564.1};
OS Salinimonas iocasae.
OC Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
OC Alteromonadales; Alteromonadaceae; Alteromonas/Salinimonas group;
OC Salinimonas.
OX NCBI_TaxID=2572577 {ECO:0000313|EMBL:QCZ94564.1, ECO:0000313|Proteomes:UP000304912};
RN [1] {ECO:0000313|EMBL:QCZ94564.1, ECO:0000313|Proteomes:UP000304912}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=KX18D6 {ECO:0000313|EMBL:QCZ94564.1,
RC ECO:0000313|Proteomes:UP000304912};
RA Zhang H., Wang H., Li C.;
RT "Salinimonas iocasae sp. nov., a halophilic bacterium isolated from the
RT outer tube casing of tubeworms in Okinawa Trough.";
RL Submitted (APR-2019) to the EMBL/GenBank/DDBJ databases.
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; CP039852; QCZ94564.1; -; Genomic_DNA.
DR RefSeq; WP_139757301.1; NZ_CP039852.1.
DR AlphaFoldDB; A0A5B7YG34; -.
DR KEGG; salk:FBQ74_14295; -.
DR OrthoDB; 9809557at2; -.
DR Proteomes; UP000304912; 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; 1.10.220.120:FF:000001; RNA polymerase sigma factor RpoD; 1.
DR FunFam; 1.10.601.10:FF:000002; RNA polymerase sigma factor RpoD; 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 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:UP000304912};
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 402..415
FT /note="RNA polymerase sigma-70"
FT /evidence="ECO:0000259|PROSITE:PS00715"
FT DOMAIN 571..597
FT /note="RNA polymerase sigma-70"
FT /evidence="ECO:0000259|PROSITE:PS00716"
FT DNA_BIND 572..591
FT /note="H-T-H motif"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT REGION 169..217
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 378..448
FT /note="Sigma-70 factor domain-2"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT REGION 457..533
FT /note="Sigma-70 factor domain-3"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT REGION 546..599
FT /note="Sigma-70 factor domain-4"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT COILED 329..377
FT /evidence="ECO:0000256|SAM:Coils"
FT MOTIF 402..405
FT /note="Interaction with polymerase core subunit RpoC"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_00963"
FT COMPBIAS 185..211
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 612 AA; 69759 MW; CDF59D8928D288C7 CRC64;
MAQSKQSQIK LLIAKGKEQG YLTFAEVNDH LPQDIVDSDQ IEDIIRMIND MGIQVSESAP
DSDELLMQET TADEDAAEAA AQALATVESE IGRTTDPVRM YMREMGTVEL LTREGEIEIA
KRIEDGINQV QCSVAEYPEA ITYLLEQWDL YEAEEIRLGD IISGFVDPDD DRDLAPTATH
IGSELSEEEL EDEDDDDKDD DDDSDEDDSG VDPEQAREKF AELRDQYGKA RDVIETQGRA
HPDSRKEIAA LSEIFKEFRL VPKQFDRMVK NMRDMMDKVR IQERLVMKYS VINAKMPKKD
FIKAFAGNET STEWLGEAIN GSHAYSDALA QHKEDIERSV SKMTQVEQET GLIIADIKDI
NRRMSIGEAK ARRAKKEMVE ANLRLVISIA KKYTNRGLQF LDLIQEGNIG LMKAVDKFEY
RRGYKFSTYA TWWIRQAITR SIADQARTIR IPVHMIETIN KLNRISRQML QEMGREPSPE
ELSERMLMPE DKIRKVLKIA KEPISMETPI GDDEDSHLGD FIEDSTIIQP LDSATGGSLK
GATQEVLAGL TAREAKVLRM RFGIDMNTDH TLEEVGKQFD VTRERIRQIE AKALRKLRHP
SRSEQLRSFL DE
//
