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Protein

RNA polymerase sigma-54 factor

Gene

rpoN

Organism
Rhodobacter capsulatus (Rhodopseudomonas capsulata)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is responsible for the expression of the nitrogen fixation genes. The open complex (sigma-54 and core RNA polymerase) serves as the receptor for receipt of the melting signal from the remotely bound activator protein nifA for the expression of the nitrogen fixation proteins.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi312 – 331H-T-H motifSequence analysisAdd BLAST20

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, Nucleotidyltransferase, Sigma factor, Transferase
Biological processNitrogen fixation, Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma-54 factor
Gene namesi
Name:rpoN
Synonyms:nifR4, ntrA
OrganismiRhodobacter capsulatus (Rhodopseudomonas capsulata)
Taxonomic identifieri1061 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRhodobacter

Subcellular locationi

Keywords - Cellular componenti

DNA-directed RNA polymerase

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002055411 – 426RNA polymerase sigma-54 factorAdd BLAST426

Proteomic databases

PRIDEiP0CY59.

Structurei

3D structure databases

SMRiP0CY59.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi400 – 408RPON box9

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi5 – 18Gln-richAdd BLAST14

Sequence similaritiesi

Belongs to the sigma-54 factor family.Curated

Phylogenomic databases

eggNOGiENOG4105DTW. Bacteria.
COG1508. LUCA.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiView protein in InterPro
IPR000394. RNA_pol_sigma_54.
IPR007046. RNA_pol_sigma_54_core-bd.
IPR007634. RNA_pol_sigma_54_DNA-bd.
IPR036388. WH-like_DNA-bd_sf.
PANTHERiPTHR32248. PTHR32248. 2 hits.
PfamiView protein in Pfam
PF00309. Sigma54_AID. 1 hit.
PF04963. Sigma54_CBD. 1 hit.
PF04552. Sigma54_DBD. 1 hit.
PIRSFiPIRSF000774. RpoN. 1 hit.
PRINTSiPR00045. SIGMA54FCT.
TIGRFAMsiTIGR02395. rpoN_sigma. 1 hit.
PROSITEiView protein in PROSITE
PS00717. SIGMA54_1. 1 hit.
PS00718. SIGMA54_2. 1 hit.
PS50044. SIGMA54_3. 1 hit.

Sequencei

Sequence statusi: Complete.

P0CY59-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MELAQTLSQR QTMQMAGQML HSLAILGMSS QDLSEHLTEQ ATSNPFLTYR
60 70 80 90 100
APPAFIARGG EDFDAVGAVA AHKPSLMAHV VDQIEMAFTE TPDRLLALRF
110 120 130 140 150
AEALEPSGWL GQSLDSIALA AGVSLSRAES MLAVLQGFEP TGLFARDLSD
160 170 180 190 200
CLILQAREAD ILTWEVETLI RNIRLIAENR LSDLADLCDC DIGDIPEIIK
210 220 230 240 250
QIRHLNPKPG LAFDHQPTPV FPPDLIAVRG AEGWTVELNR ATSPTITVRE
260 270 280 290 300
DRFADGTADA KARAERRRRG RGPGAGEALE RRGDTLLRTA AVLVARQSAF
310 320 330 340 350
LDKGPAHLVP LTLEDVASEL GLHASTISRA VSGRMIQTQT RALPLRAFFS
360 370 380 390 400
RAVSTQGGGE AVSRDSLDFV QRTVGGEDRQ NPLSDDAIVT LAERAGLRIA
410 420
RRTVAKYRST LGLASSYERR RAAAAR
Length:426
Mass (Da):46,230
Last modified:June 28, 2011 - v1
Checksum:i2A9852B691ED456D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15437 Genomic DNA. Translation: CAA33477.1.
X63196 Genomic DNA. Translation: CAA44880.1.
PIRiS04848.

Similar proteinsi

Entry informationi

Entry nameiRP54_RHOCA
AccessioniPrimary (citable) accession number: P0CY59
Secondary accession number(s): P09433
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 28, 2011
Last sequence update: June 28, 2011
Last modified: October 25, 2017
This is version 17 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families