RegulonDB

RegulonDB RegulonDB 10.9: Gene Form

mdtH gene in Escherichia coli K-12 genome

Gene local context to scale (view description)

Gene
Name:	mdtH
Synonym(s):	ECK1050, G6559, b1065, yceL
Genome position(nucleotides):	1124118 <-- 1125326 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	55.33
External database links:

ASAP:	ABE-0003618
ECHOBASE:	EB3637
ECOLIHUB:	mdtH
OU-MICROARRAY:	b1065
STRING:	511145.b1065
COLOMBOS:	mdtH

Product

Name:

multidrug efflux pump MdtH

Synonym(s):

MdtH, YceL

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

inner membrane

Molecular weight:

44.363

Isoelectric point:

10.467

Motif(s):

Type	Positions	Sequence
	165 -> 185	LVCATGAVLFVLCAAFNAWLL
	244 -> 264	AVKWMYAIEACLSLTLLYPIA
	13 -> 33	YFLLIDNMLVVLGFFVVFPLI
	99 -> 116	PWLLWFSCLLSGLGGTLF
	300 -> 320	LFTLICLFYIGSIIAEPARET

Classification:

Multifun Terms (GenProtEC)
		4 - transport --> 4.2 - Electrochemical potential driven transporters --> 4.2.A - Porters (Uni-, Sym- and Antiporters)
		6 - cell structure --> 6.1 - membrane
Gene Ontology Terms (GO)
	cellular_component	GO:0016020 - membrane GO:0005886 - plasma membrane GO:0016021 - integral component of membrane
	molecular_function	GO:0022857 - transmembrane transporter activity
	biological_process	GO:0046677 - response to antibiotic GO:0055085 - transmembrane transport

Note(s):

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

External database links:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

MODBASE:

PFAM:

PRIDE:

PRODB:

PROSITE:

REFSEQ:

UNIPROT:

Operon

Name:

mdtH

Operon arrangement:

Transcription unit	Promoter
mdtH

RNA cis-regulatory element

Attenuation:	Translational

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_1337 (cluster)	1124081	reverse	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1124080 to 1124081, where the highest frequency is at position 1123304. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[1]
promoter	grxBp4	1124083	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.846. P-value: 4.027e-5 Read more >	[ICWHO]	[2]
promoter	grxBp2	1124102	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.478. P-value: 4.450e-5 Read more >	[ICWHO]	[2]
promoter	TSS_1338	1125354	reverse	nd	[RS-EPT-CBR]	[1]
promoter	TSS_1339	1125475	forward	nd	[RS-EPT-CBR]	[1]
promoter	yceHp4	1126077	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.896. P-value: 8.049e-6 Read more >	[ICWHO]	[2]
promoter	yceHp2	1126081	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: poor homology. Score: 2.416. P-value: 8.524e-5 Read more >	[ICWHO]	[2]

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

Reference(s)
[1] 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.
[2] 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

Reference(s)

[1] 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.

[2] 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

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