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Protein

RNA polymerase sigma-54 factor

Gene

rpoN

Organism
Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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 xylCAB operon and the xylS gene. 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 XylR for the expression of the xylCAB operon and xylS.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi386 – 405H-T-H motifSequence analysisAdd BLAST20

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Sigma factor, Transferase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma-54 factor
Gene namesi
Name:rpoN
Synonyms:ntrA
Ordered Locus Names:PP_0952
OrganismiPseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
Taxonomic identifieri160488 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
Proteomesi
  • UP000000556 Componenti: Chromosome

Subcellular locationi

Keywords - Cellular componenti

DNA-directed RNA polymerase

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002055351 – 497RNA polymerase sigma-54 factorAdd BLAST497

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
itself6EBI-8302876,EBI-8302876

GO - Molecular functioni

  • identical protein binding Source: IntAct

Protein-protein interaction databases

MINTiMINT-8407296.
STRINGi160488.PP_0952.

Structurei

3D structure databases

ProteinModelPortaliP0A171.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi474 – 482RPON box9

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi11 – 35Gln-richAdd BLAST25

Sequence similaritiesi

Belongs to the sigma-54 factor family.Curated

Phylogenomic databases

eggNOGiENOG4105DTW. Bacteria.
COG1508. LUCA.
HOGENOMiHOG000071905.
KOiK03092.
OMAiTQKFMHT.

Family and domain databases

InterProiIPR000394. RNA_pol_sigma_54.
IPR007046. RNA_pol_sigma_54_core-bd.
IPR007634. RNA_pol_sigma_54_DNA-bd.
[Graphical view]
PfamiPF00309. Sigma54_AID. 1 hit.
PF04963. Sigma54_CBD. 1 hit.
PF04552. Sigma54_DBD. 1 hit.
[Graphical view]
PIRSFiPIRSF000774. RpoN. 1 hit.
PRINTSiPR00045. SIGMA54FCT.
TIGRFAMsiTIGR02395. rpoN_sigma. 1 hit.
PROSITEiPS00717. SIGMA54_1. 1 hit.
PS00718. SIGMA54_2. 1 hit.
PS50044. SIGMA54_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0A171-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKPSLVLKMG QQLTMTPQLQ QAIRLLQLST LDLQQEIQEA LESNPMLERQ
60 70 80 90 100
EDGEDFDNSD PMADNAENKP AAEVQDNSFQ ESTVSADNLE DGEWSERIPN
110 120 130 140 150
ELPVDTAWED IYQTSASSLP SNDDDEWDFT TRTSAGESLQ SHLLWQLNLA
160 170 180 190 200
PMSDTDRLIA VTLIDSINGQ GYLEDTLEEI CAGFDPELDI ELDEVEAVLH
210 220 230 240 250
RIQQFEPAGV GARNLGECLL LQLRQLPATT PWMTEAKRLV TDFIDLLGSR
260 270 280 290 300
DYSQLMRRMK IKEDELRQVI ELVQSLNPRP GSQIESSEPE YVVPDVIVRK
310 320 330 340 350
DSDRWLVELN QEAIPRLRVN PQYAGFVRRA DTSADNTFMR NQLQEARWFI
360 370 380 390 400
KSLQSRNETL MKVATQIVEH QRGFLDHGDE AMKPLVLHDI AEAVGMHEST
410 420 430 440 450
ISRVTTQKYM HTPRGIYELK YFFSSHVSTS EGGECSSTAI RAIIKKLVAA
460 470 480 490
ENQKKPLSDS KIAGLLEAQG IQVARRTVAK YRESLGIAPS SERKRLM
Length:497
Mass (Da):56,215
Last modified:March 1, 2005 - v1
Checksum:i921E788B48B5B2F8
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti181C → S in CAA34494 (PubMed:2602128).Curated1
Sequence conflicti366Q → R in CAA34494 (PubMed:2602128).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X16474 Genomic DNA. Translation: CAA34494.1.
AE015451 Genomic DNA. Translation: AAN66577.1.
PIRiT01753.
RefSeqiNP_743113.1. NC_002947.4.
WP_003255133.1. NC_002947.4.

Genome annotation databases

GeneIDi1044867.
KEGGippu:PP_0952.
PATRICi19940054. VBIPsePut30601_1013.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X16474 Genomic DNA. Translation: CAA34494.1.
AE015451 Genomic DNA. Translation: AAN66577.1.
PIRiT01753.
RefSeqiNP_743113.1. NC_002947.4.
WP_003255133.1. NC_002947.4.

3D structure databases

ProteinModelPortaliP0A171.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

MINTiMINT-8407296.
STRINGi160488.PP_0952.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1044867.
KEGGippu:PP_0952.
PATRICi19940054. VBIPsePut30601_1013.

Phylogenomic databases

eggNOGiENOG4105DTW. Bacteria.
COG1508. LUCA.
HOGENOMiHOG000071905.
KOiK03092.
OMAiTQKFMHT.

Family and domain databases

InterProiIPR000394. RNA_pol_sigma_54.
IPR007046. RNA_pol_sigma_54_core-bd.
IPR007634. RNA_pol_sigma_54_DNA-bd.
[Graphical view]
PfamiPF00309. Sigma54_AID. 1 hit.
PF04963. Sigma54_CBD. 1 hit.
PF04552. Sigma54_DBD. 1 hit.
[Graphical view]
PIRSFiPIRSF000774. RpoN. 1 hit.
PRINTSiPR00045. SIGMA54FCT.
TIGRFAMsiTIGR02395. rpoN_sigma. 1 hit.
PROSITEiPS00717. SIGMA54_1. 1 hit.
PS00718. SIGMA54_2. 1 hit.
PS50044. SIGMA54_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRP54_PSEPK
AccessioniPrimary (citable) accession number: P0A171
Secondary accession number(s): P15591
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 1, 2005
Last sequence update: March 1, 2005
Last modified: November 2, 2016
This is version 71 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.