RegulonDB

RegulonDB RegulonDB 10.8: Gene Form

yfeZ gene in Escherichia coli K-12 genome

Gene local context to scale (view description)

Gene
Name:	yfeZ
Synonym(s):	ECK2428, G7268, b2433
Genome position(nucleotides):	2551277 <-- 2551726 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	52.89
External database links:

ASAP:	ABE-0008023
ECHOBASE:	EB3919
OU-MICROARRAY:	b2433
PortEco:	yfeZ
STRING:	511145.b2433
COLOMBOS:	yfeZ

Product

Name:

putative inner membrane protein

Synonym(s):

YfeZ

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

inner membrane

Molecular weight:

17.168

Isoelectric point:

9.663

Motif(s):

Type	Positions	Sequence
	116 -> 136	VSGIGLALVVADIVALIWLLT
	6 -> 145	FHPVHYDAHGRLRLPLLFWLVLLLQARTWVLFVIAGASREQGTALLNLFYPDHDNFWLGLIPGIPAVLAFLLSGRRATFPRTWRVLYFLLLLAQVVLLCWQPWLWLNGESVSGIGLALVVADIVALIWLLTNRRLRACFY
	19 -> 39	LPLLFWLVLLLQARTWVLFVI
	59 -> 79	DNFWLGLIPGIPAVLAFLLSG
	90 -> 110	VLYFLLLLAQVVLLCWQPWLW

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:

DIP:

ECOCYC:

ECOLIWIKI:

INTERPRO:

PFAM:

PRIDE:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

ypeA-yfeZ

Operon arrangement:

Transcription unit	Promoter

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	yfeXp5	2550678	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 9.509. P-value: 8.151e-7 Read more >	[ICWHO]	[1]
promoter	yfeZp3	2551921	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: poor homology. Score: 5.099. P-value: 7.560e-5 Read more >	[ICWHO]	[1]
promoter	TSS_2747 (cluster)	2552242	forward	For this promoter, there is a cluster of 4 transcription start sites,in the interval 2552242 to 2552245, where the highest frequency is at position 2550264. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[2]

Evidence
[ICWHO] 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.

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