RegulonDB

Gene
Name:	ralR
Synonym(s):	ECK1345, EG11900, b1348, lar, ydaB
Genome position(nucleotides):	1413733 <-- 1413927 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	40.51
External database links:

ASAP:	ABE-0004524
CGSC:	37053
ECHOBASE:	EB1845
ECOLIHUB:	lar
OU-MICROARRAY:	b1348
STRING:	511145.b1348
COLOMBOS:	ralR

Product

Name:

Rac prophage; endodeoxyribonuclease toxin RalR

Synonym(s):

Lar, Rac prophage, DNA endonuclease toxin of the RalRA toxin-antitoxin system, restriction alleviation and modification enhancement, RalR, YdaB

Sequence:

Get amino acid sequence Fasta Format

Molecular weight:

7.019

Isoelectric point:

9.033

Motif(s):

Type	Positions	Sequence
	5 -> 54	NVKPCPFCGCPSVTVKAISGYYRAKCNGCESRTGYGGSEKEALERWNKRT
	52 -> 52	K
	43 -> 46	EKEA

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		8 - extrachromosomal --> 8.1 - prophage genes and phage related functions
Gene Ontology Terms (GO)
	molecular_function	GO:0004518 - nuclease activity GO:0004519 - endonuclease activity GO:0016787 - hydrolase activity GO:1990238 - double-stranded DNA endodeoxyribonuclease activity
	biological_process	GO:0009307 - DNA restriction-modification system GO:0046677 - response to antibiotic GO:0090305 - nucleic acid phosphodiester bond hydrolysis

Note(s):

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

Evidence:

[IDA] Inferred from direct assay
[IGI] Inferred from genetic interaction

Reference(s):

[1] Blakely GW., et al., 2006
[2] Clark AJ., et al., 1993
[3] Guo Y., et al., 2014
[4] Handa N., et al., 2005
[5] King G., et al., 1995
[6] Simmon VF., et al., 1972
[7] Toothman P. 1981

External database links:

ECOCYC:

ECOLIWIKI:

INTERPRO:

PFAM:

PRIDE:

PRODB:

REFSEQ:

UNIPROT:

Operon

Name:

recET-ralR-rcbA-xisR-intR

Operon arrangement:

Transcription unit	Promoter
recET-ralR-rcbA-xisR-intR

Regulation by small RNA
	Display Regulation
small RNA	ralA

Elements in the selected gene context region unrelated to any object in RegulonDB

	Type	Name	Post Left	Post Right	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
	promoter	intRp4	1413260		reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.196. P-value: 2.754e-5 Read more >	[ICWHO]	[8]

Evidence
[ICWHO] Inferred computationally without human oversight

Reference(s)
[1] Blakely GW., Murray NE., 2006, Control of the endonuclease activity of type I restriction-modification systems is required to maintain chromosome integrity following homologous recombination., Mol Microbiol 60(4):883-93
[2] Clark AJ., Sharma V., Brenowitz S., Chu CC., Sandler S., Satin L., Templin A., Berger I., Cohen A., 1993, Genetic and molecular analyses of the C-terminal region of the recE gene from the Rac prophage of Escherichia coli K-12 reveal the recT gene., J Bacteriol 175(23):7673-82
[3] Guo Y., Quiroga C., Chen Q., McAnulty MJ., Benedik MJ., Wood TK., Wang X., 2014, RalR (a DNase) and RalA (a small RNA) form a type I toxin-antitoxin system in Escherichia coli., Nucleic Acids Res 42(10):6448-62
[4] Handa N., Kobayashi I., 2005, Type III restriction is alleviated by bacteriophage (RecE) homologous recombination function but enhanced by bacterial (RecBCD) function., J Bacteriol 187(21):7362-73
[5] King G., Murray NE., 1995, Restriction alleviation and modification enhancement by the Rac prophage of Escherichia coli K-12., Mol Microbiol 16(4):769-77
[6] Simmon VF., Lederberg S., 1972, Degradation of bacteriophage lambda deoxyribonucleic acid after restriction by Escherichia coli K-12., J Bacteriol 112(1):161-9
[7] Toothman P., 1981, Restriction alleviation by bacteriophages lambda and lambda reverse., J Virol 38(2):621-31
[8] 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