RegulonDB

Gene
Name:	lrhA
Synonym(s):	ECK2283, EG12123, b2289, genR
Genome position(nucleotides):	2405703 <-- 2406641
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	49.73
External database links:

ASAP:	ABE-0007555
CGSC:	32685
ECHOBASE:	EB2044
ECOLIHUB:	lrhA
OU-MICROARRAY:	b2289
STRING:	511145.b2289
COLOMBOS:	lrhA

Shine dalgarno
Sequence:	tgagccgccaGTAAGTgataataTAT

Product

Name:

DNA-binding transcriptional dual regulator LrhA

Synonym(s):

GenR, LrhA

Sequence:

Get amino acid sequence Fasta Format

Regulator Family:

LysR

Cellular location:

cytosol

Molecular weight:

34.594

Isoelectric point:

5.029

Motif(s):

Type	Positions	Sequence	Comment
	11 -> 68	LDLDLLRTFVAVADLNTFAAAAAAVCRTQSAVSQQMQRLEQLVGKELFARHGRNKLLT	UniProt: HTH lysR-type.
	13 -> 71	LDLLRTFVAVADLNTFAAAAAAVCRTQSAVSQQMQRLEQLVGKELFARHGRNKLLTEHG
	28 -> 47	FAAAAAAVCRTQSAVSQQMQ	UniProt: H-T-H motif.
	97 -> 281	LQGVLTIGASDESADTILPFLLNRVSSVYPKLALDVRVKRNAYMAEMLESQEVDLMVTTHRPSAFKALNLRTSPTHWYCAAEYILQKGEPIPLVLLDDPSPFRDMVLATLNKADIPWRLAYVASTLPAVRAAVKAGLGVTARPVEMMSPDLRVLSGVDGLPPLPDTEYLLCYDPSSNNELAQVIY
	291 -> 312	WQYSPMSAPEGDDSLLIERDIE	UniProt: In Ref. 1; CAA52637..

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 GO:0043565 - sequence-specific DNA binding GO:0000987 - cis-regulatory region sequence-specific DNA binding
	biological_process	GO:0006351 - transcription, DNA-templated GO:0006355 - regulation of transcription, DNA-templated GO:0045892 - negative regulation of transcription, DNA-templated GO:0045893 - positive regulation of transcription, DNA-templated

Note(s):

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

Evidence:

[COMP-HINF-FN-FROM-SEQ] Human inference of function from sequence
[EXP-IDA-PURIFIED-PROTEIN] Assay of protein purified to homogeneity
[EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis

Reference(s):

[1] Bongaerts J., et al., 1995
[2] Gibson KE., et al., 1999
[3] Lehnen D., et al., 2002

External database links:

ALPHAFOLD:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

MODBASE:

PFAM:

PFAM:

PRIDE:

PRINTS:

PROSITE:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

lrhA

Operon arrangement:

Transcription unit	Promoter
lrhA	lrhAp

Transcriptional Regulation
	Display Regulation
Activated by:	LrhA

RNA cis-regulatory element

Attenuation:	Transcriptional

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

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_2564	2404729	reverse	nd	[RS-EPT-CBR]	[4]
promoter	TSS_2565	2405136	reverse	nd	[RS-EPT-CBR]	[4]
promoter	TSS_2566 (cluster)	2405828	reverse	nd	[RS-EPT-CBR]	[4]
promoter	TSS_2567 (cluster)	2406635	reverse	nd	[RS-EPT-CBR]	[4]
promoter	TSS_2568	2406641	reverse	nd	[RS-EPT-CBR]	[4]
promoter	TSS_2569	2407012	reverse	nd	[RS-EPT-CBR]	[4]
promoter	alaAp7	2407414	forward	nd	[COMP-AINF]	[5]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates
[COMP-AINF] Inferred computationally without human oversight

Reference(s)
[1] Bongaerts J., Zoske S., Weidner U., Unden G., 1995, Transcriptional regulation of the proton translocating NADH dehydrogenase genes (nuoA-N) of Escherichia coli by electron acceptors, electron donors and gene regulators., Mol Microbiol 16(3):521-34
[2] Gibson KE., Silhavy TJ., 1999, The LysR homolog LrhA promotes RpoS degradation by modulating activity of the response regulator sprE., J Bacteriol 181(2):563-71
[3] Lehnen D., Blumer C., Polen T., Wackwitz B., Wendisch VF., Unden G., 2002, LrhA as a new transcriptional key regulator of flagella, motility and chemotaxis genes in Escherichia coli., Mol Microbiol 45(2):521-32
[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.
[5] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78