P24255 (RP54_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
RNA polymerase sigma-54 factor

Gene names

Name:	rpoN
Synonyms:	glnF, ntrA
Ordered Locus Names:	b3202, JW3169

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia › Escherichia coli

Protein attributes

Sequence length	477 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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 enzymes involved in arginine catabolism. The open complex (sigma-54 and core RNA polymerase) serves as the receptor for the receipt of the melting signal from the remotely bound activator protein GlnG(NtrC).
Sequence similarities	Belongs to the sigma-54 factor family.

Ontologies

Keywords
Biological process	Arginine metabolism Transcription Transcription regulation
Cellular component	DNA-directed RNA polymerase
Ligand	DNA-binding
Molecular function	Nucleotidyltransferase Sigma factor Transferase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA-dependent transcription, initiation Inferred from electronic annotation. Source: InterPro arginine metabolic process Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW DNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW sequence-specific DNA binding transcription factor activity Inferred from electronic annotation. Source: InterPro sigma factor activity Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 477	477	RNA polymerase sigma-54 factor		PRO_0000205529
Regions
	DNA binding	366 – 385	20	H-T-H motif By similarity
	Motif	454 – 462	9	RPON box
	Compositional bias	3 – 39	37	Gln-rich
Experimental info
	Sequence conflict	99 – 103	5	GTSGD → APAVT Ref.1
	Sequence conflict	99 – 103	5	GTSGD → APAVT Ref.2

Sequences

	Sequence		Length	Mass (Da)
	P24255 [UniParc]. Last modified February 1, 1994. Version 2. Checksum: 1FAA4273A02B34FD	FASTA	477	53,990
	10 20 30 40 50 60 MKQGLQLRLS QQLAMTPQLQ QAIRLLQLST LELQQELQQA LESNPLLEQI DTHEEIDTRE 70 80 90 100 110 120 TQDSETLDTA DALEQKEMPE ELPLDASWDT IYTAGTPSGT SGDYIDDELP VYQGETTQTL 130 140 150 160 170 180 QDYLMWQVEL TPFSDTDRAI ATSIVDAVDE TGYLTVPLED ILESIGDEEI DIDEVEAVLK 190 200 210 220 230 240 RIQRFDPVGV AAKDLRDCLL IQLSQFDKTT PWLEEARLII SDHLDLLANH DFRTLMRVTR 250 260 270 280 290 300 LKEDVLKEAV NLIQSLDPRP GQSIQTGEPE YVIPDVLVRK HNGHWTVELN SDSIPRLQIN 310 320 330 340 350 360 QHYASMCNNA RNDGDSQFIR SNLQDAKWLI KSLESRNDTL LRVSRCIVEQ QQAFFEQGEE 370 380 390 400 410 420 YMKPMVLADI AQAVEMHEST ISRVTTQKYL HSPRGIFELK YFFSSHVNTE GGGEASSTAI 430 440 450 460 470 RALVKKLIAA ENPAKPLSDS KLTSLLSEQG IMVARRTVAK YRESLSIPPS NQRKQLV

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Role of eukaryotic-type functional domains found in the prokaryotic enhancer receptor factor sigma 54." Sasse-Dwight S., Gralla J.D. Cell 62:945-954(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Physical map location of the rpoN gene of Escherichia coli." Imaishi H., Gomada M., Inouye S., Nakazawa A. J. Bacteriol. 175:1550-1551(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: K12.
[3]	"Molecular analysis of the operon which encodes the RNA polymerase sigma factor sigma 54 of Escherichia coli." Jones D.H.A., Franklin C.F.H., Thomas C.M. Microbiology 140:1035-1043(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: K12.
[4]	"Novel proteins of the phosphotransferase system encoded within the rpoN operon of Escherichia coli. Enzyme IIANtr affects growth on organic nitrogen and the conditional lethality of an erats mutant." Powell B.S., Court D.L., Inada T., Nakamura Y., Michotey V., Cui X., Reizer A., Saier M.H. Jr., Reizer J. J. Biol. Chem. 270:4822-4839(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[5]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[6]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M57612 Genomic DNA. Translation: AAA62790.1. D12938 Genomic DNA. Translation: BAA02315.1. Z27094 Genomic DNA. Translation: CAA81617.1. U12684 Genomic DNA. Translation: AAB60163.1. U18997 Genomic DNA. Translation: AAA58004.1. U00096 Genomic DNA. Translation: AAC76234.1. AP009048 Genomic DNA. Translation: BAE77246.1.
PIR	A35695. I57054.
RefSeq	NP_417669.1. NC_000913.2. YP_491387.1. NC_007779.1.
3D structure databases
ProteinModelPortal	P24255.
SMR	P24255. Positions 423-465.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-10776N.
IntAct	P24255. 14 interactions.
MINT	MINT-1224654.
STRING	511145.b3202.
Proteomic databases
PaxDb	P24255.
PRIDE	P24255.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAC76234; AAC76234; b3202. BAE77246; BAE77246; BAE77246.
GeneID	12930288. 947714.
KEGG	ecj:Y75_p3122. eco:b3202.
PATRIC	32121824. VBIEscCol129921_3296.
Organism-specific databases
EchoBASE	EB0891.
EcoGene	EG10898. rpoN.
Phylogenomic databases
eggNOG	COG1508.
HOGENOM	HOG000071905.
KO	K03092.
OMA	RFDPAMQ.
ProtClustDB	PRK05932.
Enzyme and pathway databases
BioCyc	EcoCyc:RPON-MONOMER. ECOL316407:JW3169-MONOMER. MetaCyc:RPON-MONOMER.
Gene expression databases
Genevestigator	P24255.
Family and domain databases
InterPro	IPR000394. RNA_pol_sigma_54. IPR007046. RNA_pol_sigma_54_core-bd. IPR007634. RNA_pol_sigma_54_DNA-bd. [Graphical view]
Pfam	PF00309. Sigma54_AID. 1 hit. PF04963. Sigma54_CBD. 1 hit. PF04552. Sigma54_DBD. 1 hit. [Graphical view]
PIRSF	PIRSF000774. RpoN. 1 hit.
PRINTS	PR00045. SIGMA54FCT.
TIGRFAMs	TIGR02395. rpoN_sigma. 1 hit.
PROSITE	PS00717. SIGMA54_1. 1 hit. PS00718. SIGMA54_2. 1 hit. PS50044. SIGMA54_3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RP54_ECOLI

Accession

Primary (citable) accession number: P24255
Secondary accession number(s): Q2M910

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 1, 1992
Last sequence update:	February 1, 1994
Last modified:	May 1, 2013
This is version 110 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program