ID   RP54_RHOCB              Reviewed;         428 AA.
AC   D5ANH9; P09433;
DT   28-JUN-2011, integrated into UniProtKB/Swiss-Prot.
DT   15-JUN-2010, sequence version 1.
DT   03-AUG-2022, entry version 63.
DE   RecName: Full=RNA polymerase sigma-54 factor;
GN   Name=rpoN; Synonyms=nifR4, ntrA; OrderedLocusNames=RCAP_rcc00568;
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;
RX   PubMed=2710108; DOI=10.1007/bf00427050;
RA   Jones R., Haselkorn R.;
RT   "The DNA sequence of the Rhodobacter capsulatus ntrA, ntrB and ntrC gene
RT   analogues required for nitrogen fixation.";
RL   Mol. Gen. Genet. 215:507-516(1989).
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 responsible for the expression of the
CC       nitrogen fixation genes. The open complex (sigma-54 and core RNA
CC       polymerase) serves as the receptor for receipt of the melting signal
CC       from the remotely bound activator protein nifA for the expression of
CC       the nitrogen fixation proteins.
CC   -!- SIMILARITY: Belongs to the sigma-54 factor family. {ECO:0000305}.
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DR   EMBL; X12358; CAA30919.1; -; Genomic_DNA.
DR   EMBL; CP001312; ADE84333.1; -; Genomic_DNA.
DR   PIR; S04848; S04848.
DR   RefSeq; WP_013066312.1; NC_014034.1.
DR   AlphaFoldDB; D5ANH9; -.
DR   SMR; D5ANH9; -.
DR   STRING; 272942.RCAP_rcc00568; -.
DR   EnsemblBacteria; ADE84333; ADE84333; RCAP_rcc00568.
DR   GeneID; 31489519; -.
DR   KEGG; rcp:RCAP_rcc00568; -.
DR   eggNOG; COG1508; Bacteria.
DR   HOGENOM; CLU_020569_0_0_5; -.
DR   OMA; TWELRTM; -.
DR   OrthoDB; 1906842at2; -.
DR   Proteomes; UP000002361; Chromosome.
DR   GO; GO:0000428; C:DNA-directed RNA polymerase complex; IEA:UniProtKB-KW.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0001216; F:DNA-binding transcription activator activity; IEA:InterPro.
DR   GO; GO:0016779; F:nucleotidyltransferase activity; IEA:UniProtKB-KW.
DR   GO; GO:0016987; F:sigma factor activity; IEA:UniProtKB-KW.
DR   GO; GO:0006352; P:DNA-templated transcription, initiation; IEA:InterPro.
DR   GO; GO:0009399; P:nitrogen fixation; IEA:UniProtKB-KW.
DR   Gene3D; 1.10.10.1330; -; 1.
DR   InterPro; IPR000394; RNA_pol_sigma_54.
DR   InterPro; IPR007046; RNA_pol_sigma_54_core-bd.
DR   InterPro; IPR007634; RNA_pol_sigma_54_DNA-bd.
DR   InterPro; IPR038709; RpoN_core-bd_sf.
DR   PANTHER; PTHR32248; PTHR32248; 1.
DR   Pfam; PF00309; Sigma54_AID; 1.
DR   Pfam; PF04963; Sigma54_CBD; 1.
DR   Pfam; PF04552; Sigma54_DBD; 1.
DR   PIRSF; PIRSF000774; RpoN; 1.
DR   PRINTS; PR00045; SIGMA54FCT.
DR   TIGRFAMs; TIGR02395; rpoN_sigma; 1.
DR   PROSITE; PS00717; SIGMA54_1; 1.
DR   PROSITE; PS00718; SIGMA54_2; 1.
DR   PROSITE; PS50044; SIGMA54_3; 1.
PE   3: Inferred from homology;
KW   DNA-binding; DNA-directed RNA polymerase; Nitrogen fixation;
KW   Nucleotidyltransferase; Reference proteome; Sigma factor; Transcription;
KW   Transcription regulation; Transferase.
FT   CHAIN           1..428
FT                   /note="RNA polymerase sigma-54 factor"
FT                   /id="PRO_0000409932"
FT   DNA_BIND        313..332
FT                   /note="H-T-H motif"
FT                   /evidence="ECO:0000255"
FT   MOTIF           402..410
FT                   /note="RPON box"
FT   CONFLICT        67
FT                   /note="A -> G (in Ref. 1; CAA30919)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        268..278
FT                   /note="KALAEARALAQ -> RRGRGPGAGE (in Ref. 1; CAA30919)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        284
FT                   /note="G -> R (in Ref. 1; CAA30919)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        368
FT                   /note="Missing (in Ref. 1; CAA30919)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        376..381
FT                   /note="VGGEDP -> WAAKIR (in Ref. 1; CAA30919)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   428 AA;  46385 MW;  160B02D18F2E0369 CRC64;
     MELAQTLSQR QTMQMAGQML HSLAILGMSS QDLSEHLTEQ ATSNPFLTYR APPAFIARGG
     EDFDAVAAVA AHKPSLMAHV VDQIEMAFTE TPDRLLALRF AEALEPSGWL GQSLDSIALA
     AGVSLSRAES MLAVLQGFEP TGLFARDLSD CLILQAREAD ILTWEVETLI RNIRLIAENR
     LSDLADLCDC DIGDIPEIIK QIRHLNPKPG LAFDHQPTPV FPPDLIAVRG AEGWTVELNR
     ATSPTITVRE DRFADGTADA KARAERRKAL AEARALAQAL ERRGDTLLRT AAVLVARQSA
     FLDKGPAHLV PLTLEDVASE LGLHASTISR AVSGRMIQTQ TRALPLRAFF SRAVSTQGGG
     EAVSRDSALD FVQRTVGGED PQNPLSDDAI VTLAERAGLR IARRTVAKYR STLGLASSYE
     RRRAAAAR