RegulonDB

Gene
Name:	yhiD
Synonym(s):	ECK3492, EG11400, b3508, yhhE
Genome position(nucleotides):	3655255 <-- 3655902
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	45.52
External database links:

ASAP:	ABE-0011456
ECHOBASE:	EB1372
ECOLIHUB:	yhiD
OU-MICROARRAY:	b3508
STRING:	511145.b3508
COLOMBOS:	yhiD

Product

Name:

inner membrane protein YhiD

Synonym(s):

YhhE, YhiD

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

inner membrane

Molecular weight:

23.213

Isoelectric point:

7.161

Motif(s):

Type	Positions	Sequence	Comment
	1 -> 21	MTAEFIIRLILAAIACGAIGM	UniProt: Helical.
	9 -> 137	LILAAIACGAIGMERQMRGKGAGLRTHVLIGMGSALFMIVSKYGFADVLSLDHVGLDPSRIAAQVVTGVGFIGAGNILVRNQNIVGLTTAADIWVTAAIGMVIGSGMYELGIYGSVMTLLVLEVFHQLT
	36 -> 56	VLIGMGSALFMIVSKYGFADV	UniProt: Helical.
	67 -> 87	SRIAAQVVTGVGFIGAGNILV	UniProt: Helical.
	92 -> 112	IVGLTTAADIWVTAAIGMVIG	UniProt: Helical.

Classification:

Multifun Terms (GenProtEC)
Gene Ontology Terms (GO)
Gene Ontology Terms (GO)	cellular_component	GO:0016020 - membrane GO:0005886 - plasma membrane GO:0016021 - integral component of membrane

Note(s):

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

External database links:

ALPHAFOLD:

ECOCYC:

ECOLIWIKI:

INTERPRO:

PANTHER:

PFAM:

PRIDE:

PRINTS:

REFSEQ:

UNIPROT:

Operon

Name:

hdeAB-yhiD

Operon arrangement:

Transcription unit	Promoter
hdeAB-yhiD	hdeAp
hdeAB-yhiD	hdeAp2
yhiD

Transcriptional Regulation
	Display Regulation
Activated by:	GadX, PhoP, GadW, TorR, RcsB, GadE
Repressed by:	FliZ, MarA, H-NS, GadX, Lrp, GadW

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	yhiDp8	3656039	reverse	nd	[COMP-AINF]	[1]
promoter	yhiDp1	3656110	reverse	nd	[COMP-AINF]	[1]
promoter	TSS_4115	3656259	reverse	nd	[RS-EPT-CBR]	[2]
promoter	TSS_4116	3656277	reverse	nd	[RS-EPT-CBR]	[2]
promoter	TSS_4117	3656279	reverse	nd	[RS-EPT-CBR]	[2]

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

Reference(s)
[1] 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
[2] 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.

Reference(s)

[1] 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

[2] 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.