RegulonDB

Gene
Name:	dinJ
Synonym(s):	ECK0227, G6110, b0226, sosA
Genome position(nucleotides):	246242 <-- 246502 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	46.74
External database links:

ASAP:	ABE-0000764
ECHOBASE:	EB2936
OU-MICROARRAY:	b0226
PortEco:	dinJ
STRING:	511145.b0226
COLOMBOS:	dinJ

Product

Name:

antitoxin/DNA-binding transcriptional repressor DinJ

Synonym(s):

DinJ, DinJ antitoxin of YafQ-DinJ toxin-antitoxin system / DNA-binding transcriptional repressor, SosA

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

cytosol

Molecular weight:

9.406

Isoelectric point:

5.08

Motif(s):

Type	Positions	Sequence
	4 -> 83	NAFVRARIDEDLKNQAADVLAGMGLTISDLVRITLTKVAREKALPFDLREPNQLTIQSIKNSEAGIDVHKAKDADDLFDK
	35 -> 35	R
	2 -> 44	AANAFVRARIDEDLKNQAADVLAGMGLTISDLVRITLTKVARE
	10 -> 10	R

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		5 - cell processes --> 5.6 - protection --> 5.6.3 - cell killing
Gene Ontology Terms (GO)
	cellular_component	GO:0005829 - cytosol
	molecular_function	GO:0003677 - DNA binding GO:0005515 - protein binding GO:0015643 - toxic substance binding GO:0042803 - protein homodimerization activity GO:0000986 - bacterial-type cis-regulatory region sequence-specific DNA binding
	biological_process	GO:0006351 - transcription, DNA-templated GO:0006355 - regulation of transcription, DNA-templated GO:0044010 - single-species biofilm formation GO:2000143 - negative regulation of DNA-templated transcription, initiation

Note(s):

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

External database links:

DIP:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

PANTHER:

PDB:

PFAM:

PRIDE:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

dinJ-yafQ

Operon arrangement:

Transcription unit	Promoter
dinJ-yafQ	dinJp

Transcriptional Regulation
	Display Regulation
Repressed by:	DinJ-YafQ, LexA

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	yafKp6	245993	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.148. P-value: 9.805e-5 Read more >	[ICWHO]	[1]
promoter	TSS_444	246205	reverse	nd	[RS-EPT-CBR]	[2]
promoter	TSS_445 (cluster)	246533	reverse	For this promoter, there is a cluster of 2 transcription start sites,in the interval 246532 to 246533, where the highest frequency is at position 246533. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[2]
promoter	yafLp6	246641	forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.86. P-value: 6.928e-6 Read more >	[ICWHO]	[1]

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.