RegulonDB

Gene
Name:	comR
Synonym(s):	ECK1097, G6569, b1111, ycfQ
Genome position(nucleotides):	1168200 <-- 1168832 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	51.18
External database links:

ASAP:	ABE-0003754
ECHOBASE:	EB3209
OU-MICROARRAY:	b1111
PortEco:	ycfQ
STRING:	511145.b1111
COLOMBOS:	comR

Product

Name:

DNA-binding transcriptional repressor ComR

Synonym(s):

ComR, YcfQ

Sequence:

Get amino acid sequence Fasta Format

Regulator Family:

TetR/AcrR

Cellular location:

cytosol

Molecular weight:

23.362

Isoelectric point:

6.985

Motif(s):

Type	Positions	Sequence
	25 -> 70	LDKAMKLFWQHGYEATSLADLVEATGAKAPTLYAEFTNKEGLFRAV
	18 -> 78	VFDRDAALDKAMKLFWQHGYEATSLADLVEATGAKAPTLYAEFTNKEGLFRAVLDRYIDRF
	41 -> 60	SLADLVEATGAKAPTLYAEF

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level
Gene Ontology Terms (GO)
	cellular_component	GO:0005829 - cytosol
	molecular_function	GO:0003677 - DNA binding GO:0003700 - DNA-binding transcription factor activity GO:0000976 - transcription regulatory region sequence-specific DNA binding
	biological_process	GO:0006355 - regulation of transcription, DNA-templated GO:0046688 - response to copper ion GO:0045892 - negative regulation of transcription, DNA-templated

Note(s):

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

Evidence:

[AIFS] Automated inference of function from sequence
[APPHINH] Assay of protein purified to homogeneity from its native host
[IEP] Inferred from expression pattern

Reference(s):

[1] Mermod M., et al., 2012
[2] Perez-Rueda E., et al., 2004

External database links:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

MODBASE:

PFAM:

PRIDE:

PRINTS:

PROSITE:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

comR

Operon arrangement:

Transcription unit	Promoter
ycfQ	comRp

Transcriptional Regulation
	Display Regulation
Repressed by:	CRP

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_1442	1168035	forward	nd	[RS-EPT-CBR]	[3]
promoter	comRp3	1168863	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: poor homology. Score: 3.06. P-value: 5.888e-5 Read more >	[ICWHO]	[4]
promoter	bhsAp8	1168981	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.09. P-value: 6.573e-5 Read more >	[ICWHO]	[4]

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] Mermod M., Magnani D., Solioz M., Stoyanov JV., 2012, The copper-inducible ComR (YcfQ) repressor regulates expression of ComC (YcfR), which affects copper permeability of the outer membrane of Escherichia coli., Biometals 25(1):33-43
[2] Perez-Rueda E., Collado-Vides J., Segovia L., 2004, Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea., Comput Biol Chem 28(5-6):341-50
[3] 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.
[4] 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