RegulonDB

Gene
Name:	plaR
Synonym(s):	ECK3563, EG12278, b3574, yiaJ
Genome position(nucleotides):	3741684 <-- 3742532 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	52.18
External database links:

ASAP:	ABE-0011677
ECHOBASE:	EB2186
ECOLIHUB:	yiaJ
OU-MICROARRAY:	b3574
STRING:	511145.b3574
COLOMBOS:	plaR

Shine dalgarno
Sequence:	gcgctaccatCAGGACgcgacaaAAT

Product

Name:

DNA-binding transcriptional repressor PlaR

Synonym(s):

PlaR, YiaJ

Sequence:

Get amino acid sequence Fasta Format

Regulator Family:

IclR

Cellular location:

cytosol

Molecular weight:

31.067

Isoelectric point:

6.912

Motif(s):

Type	Positions	Sequence
	100 -> 272	IIHIAAPHLEALNIATGETINFSSREDDHAILIYKLEPTTGMLRTRAYIGQHMPLYCSAMGKIYMAFGHPDYVKSYWESHQHEIQPLTRNTITELPAMFDELAHIRESGAAMDREENELGVSCIAVPVFDIHGRVPYAVSISLSTSRLKQVGEKNLLKPLRETAQAISNELGF
	143 -> 268	RTRAYIGQHMPLYCSAMGKIYMAFGHPDYVKSYWESHQHEIQPLTRNTITELPAMFDELAHIRESGAAMDREENELGVSCIAVPVFDIHGRVPYAVSISLSTSRLKQVGEKNLLKPLRETAQAISN
	25 -> 74	SLFRGLMLIEILSNYPNGCPLAHLSELAGLNKSTVHRLLQGLQSCGYVTT
	45 -> 64	LAHLSELAGLNKSTVHRLLQ
	23 -> 85	SQSLFRGLMLIEILSNYPNGCPLAHLSELAGLNKSTVHRLLQGLQSCGYVTTAPAAGSYRLTT

Classification:

Multifun Terms (GenProtEC)
		2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
		3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.3 - repressor
		3 - regulation --> 3.3 - genetic unit regulated --> 3.3.1 - operon
Gene Ontology Terms (GO)
	cellular_component	GO:0005829 - cytosol
	molecular_function	GO:0003677 - DNA binding GO:0003700 - DNA-binding transcription factor activity
	biological_process	GO:0006355 - regulation of transcription, DNA-templated GO:0045892 - negative regulation of transcription, DNA-templated

Note(s):

Note(s): ...[more].

Evidence:

[APPH] Assay of protein purified to homogeneity
[GEA] Gene expression analysis
[IMP] Inferred from mutant phenotype
[IPI] Inferred from physical interaction

Reference(s):

[1] Badia J., et al., 1998
[2] Gao Y., et al., 2018
[3] Ibanez E., et al., 2000

External database links:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

MODBASE:

PDB:

PFAM:

PFAM:

PRIDE:

PROSITE:

PROSITE:

REFSEQ:

SMART:

SMR:

SWISSMODEL:

UNIPROT:

Operon

Name:

plaR

Operon arrangement:

Transcription unit	Promoter
plaR	plaRp

Transcriptional Regulation
	Display Regulation
Repressed by:	CRP, IHF, PlaR

Elements in the selected gene context region unrelated to any object in RegulonDB

	Type	Name	Post Left	Post Right	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
	promoter	TSS_4173	3741599		reverse	nd	[RS-EPT-CBR]	[4]
	promoter	TSS_4174 (cluster)	3741605		reverse	nd	[RS-EPT-CBR]	[4]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Badia J., Ibanez E., Sabate M., Baldoma L., Aguilar J., 1998, A rare 920-kilobase chromosomal inversion mediated by IS1 transposition causes constitutive expression of the yiaK-S operon for carbohydrate utilization in Escherichia coli., J Biol Chem 273(14):8376-81
[2] Gao Y., Yurkovich JT., Seo SW., Kabimoldayev I., Drager A., Chen K., Sastry AV., Fang X., Mih N., Yang L., Eichner J., Cho BK., Kim D., Palsson BO., 2018, Systematic discovery of uncharacterized transcription factors in Escherichia coli K-12 MG1655., Nucleic Acids Res 46(20):10682-10696
[3] Ibanez E., Campos E., Baldoma L., Aguilar J., Badia J., 2000, Regulation of expression of the yiaKLMNOPQRS operon for carbohydrate utilization in Escherichia coli: involvement of the main transcriptional factors., J Bacteriol 182(16):4617-24
[4] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.