RegulonDB

Gene
Name:	nimR
Synonym(s):	ECK1788, G6976, b1790, yeaM
Genome position(nucleotides):	1874755 <-- 1875576 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	49.88
External database links:

ASAP:	ABE-0005956
ECHOBASE:	EB3272
OU-MICROARRAY:	b1790
PortEco:	yeaM
STRING:	511145.b1790
COLOMBOS:	nimR

Product

Name:

DNA-binding transcriptional repressor NimR

Synonym(s):

NimR, YeaM

Sequence:

Get amino acid sequence Fasta Format

Regulator Family:

AraC/XylS

Cellular location:

cytosol

Molecular weight:

30.553

Isoelectric point:

9.077

Motif(s):

Type	Positions	Sequence
	22 -> 96	FCIHAGTDELTSPVHQHRKGQLILALHGAITCTVENALWMVPPQYAVWIPGGVEHSNQVTANAELCFLFIEPSAV
	180 -> 257	WAGFFAMSERNLARLIVKETGLSFRQWRQQLQLIMALQGLVKGDTVQKVAHTLGYDSTTAFITMFKKGLGQTPGRYIA
	225 -> 248	VQKVAHTLGYDSTTAFITMFKKGL
	178 -> 199	GQWAGFFAMSERNLARLIVKET
	158 -> 258	PKIRTMVEMMAKGPVEWGALGQWAGFFAMSERNLARLIVKETGLSFRQWRQQLQLIMALQGLVKGDTVQKVAHTLGYDSTTAFITMFKKGLGQTPGRYIAR

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
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
	biological_process	GO:0006355 - regulation of transcription, DNA-templated 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] Ogasawara H., et al., 2015
[2] Perez-Rueda E., et al., 2004

External database links:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

MODBASE:

PFAM:

PFAM:

PRIDE:

PROSITE:

PROSITE:

REFSEQ:

SMART:

SMR:

UNIPROT:

Transcriptional Regulation
	Display Regulation
Repressed by:	NimR

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	yeaNp4	1875463	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: poor homology. Score: 2.226. P-value: 9.516e-5 Read more >	[ICWHO]	[3]
promoter	yeaMp6	1875598	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 5.516. P-value: 2.232e-5 Read more >	[ICWHO]	[3]
promoter	yeaMp1	1875648	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: poor homology. Score: 2.046. P-value: 9.904e-5 Read more >	[ICWHO]	[3]
promoter	yeaNp9	1875648	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.834. P-value: 3.680e-5 Read more >	[ICWHO]	[3]
promoter	yeaOp4	1876777	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.37. P-value: 7.264e-5 Read more >	[ICWHO]	[3]
promoter	yeaOp3	1876822	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.31. P-value: 6.841e-5 Read more >	[ICWHO]	[3]

Reference(s)
[1] Ogasawara H., Ohe S., Ishihama A., 2015, Role of transcription factor NimR (YeaM) in sensitivity control of Escherichia coli to 2-nitroimidazole., FEMS Microbiol Lett 362(1):1-8
[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] 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