RegulonDB

Gene
Name:	recN
Synonym(s):	ECK2612, EG10831, b2616, radB
Genome position(nucleotides):	2751795 --> 2753456 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	51.81
External database links:

ASAP:	ABE-0008611
CGSC:	10872
ECHOBASE:	EB0824
ECOCYC:	EG10831
ECOLIHUB:	recN
OU-MICROARRAY:	b2616
REGULONDB:	b2616
STRING:	511145.b2616
M3D:	recN
COLOMBOS:	recN
PortEco:	b2616

Gene

Name:

recN

Synonym(s):

ECK2612, EG10831, b2616, radB

Genome position(nucleotides):

2751795 --> 2753456 Genome Browser

Strand:

forward

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

51.81

External database links:

ASAP:

CGSC:

ECHOBASE:

ECOCYC:

ECOLIHUB:

OU-MICROARRAY:

REGULONDB:

STRING:

M3D:

COLOMBOS:

PortEco:

Type

Positions

Sequence

35 -> 35

535 -> 553

GGSEVTRNTLANAKELLAA

59 -> 60

76 -> 76

1 -> 511

MLAQLTISNFAIVRELEIDFHSGMTVITGETGAGKSIAIDALGLCLGGRAEADMVRTGAARADLCARFSLKDTPAALRWLEENQLEDGHECLLRRVISSDGRSRGFINGTAVPLSQLRELGQLLIQIHGQHAHQLLTKPEHQKFLLDGYANETSLLQEMTARYQLWHQSCRDLAHHQQLSQERAARAELLQYQLKELNEFNPQPGEFEQIDEEYKRLANSGQLLTTSQNALALMADGEDANLQSQLYTAKQLVSELIGMDSKLSGVLDMLEEATIQIAEASDELRHYCDRLDLDPNRLFELEQRISKQISLARKHHVSPEALPQYYQSLLEEQQQLDDQADSQETLALAVTKHHQQALEIARALHQQRQQYAEELAQLITDSMHALSMPHGQFTIDVKFDEHHLGADGADRIEFRVTTNPGQPMQPIAKVASGGELSRIALAIQVITARKMETPALIFDEVDVGISGPTAAVVGKLLRQLGESTQVMCVTHLPQVAGCGHQHYFVSKETDG

Type

Positions

Sequence

35 -> 35

535 -> 553

GGSEVTRNTLANAKELLAA

59 -> 60

76 -> 76

1 -> 511

29 -> 36

GETGAGKS

Multifun Terms (GenProtEC)

2 - information transfer --> 2.1 - DNA related --> 2.1.3 - DNA recombination

2 - information transfer --> 2.1 - DNA related --> 2.1.4 - DNA repair

5 - cell processes --> 5.8 - SOS response

Gene Ontology Terms (GO)

cellular_component

GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0043590 - bacterial nucleoid

molecular_function

GO:0005515 - protein binding
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding

biological_process

GO:0010165 - response to X-ray
GO:0036298 - recombinational interstrand cross-link repair
GO:0006281 - DNA repair
GO:0006310 - DNA recombination
GO:0006974 - cellular response to DNA damage stimulus
GO:0009432 - SOS response
GO:0009314 - response to radiation
GO:0009411 - response to UV
GO:0000725 - recombinational repair
GO:0006302 - double-strand break repair
GO:0010212 - response to ionizing radiation
GO:0000724 - double-strand break repair via homologous recombination

Transcriptional Regulation
	Display Regulation
Repressed by:	DnaA, LexA

Transcriptional Regulation

Display Regulation

Repressed by:

DnaA, LexA

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_2964	2752658	reverse	nd	[RS-EPT-CBR]	[18]
promoter	TSS_2965	2753488	forward	nd	[RS-EPT-CBR]	[18]
promoter	TSS_2966	2753555	forward	nd	[RS-EPT-CBR]	[18]
promoter	TSS_2967	2753588	forward	nd	[RS-EPT-CBR]	[18]
promoter	TSS_2968	2753594	forward	nd	[RS-EPT-CBR]	[18]
promoter	TSS_2969	2753599	forward	nd	[RS-EPT-CBR]	[18]
promoter	TSS_2970	2753605	forward	nd	[RS-EPT-CBR]	[18]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

TSS_2964

2752658

reverse

[RS-EPT-CBR]

[18]

promoter

TSS_2965

2753488

forward

[RS-EPT-CBR]

[18]

promoter

TSS_2966

2753555

forward

[RS-EPT-CBR]

[18]

promoter

TSS_2967

2753588

forward

[RS-EPT-CBR]

[18]

promoter

TSS_2968

2753594

forward

[RS-EPT-CBR]

[18]

promoter

TSS_2969

2753599

forward

[RS-EPT-CBR]

[18]

promoter

TSS_2970

2753605

forward

[RS-EPT-CBR]

[18]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Evidence

[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Almeida E., Fuentes JL., Cuetara E., Prieto E., Llagostera M., 2010, Amifostine protection against induced DNA damage in gamma-irradiated Escherichia coli cells depend on recN DNA repair gene product activity., Environ Toxicol 25(2):130-6
[2] Brena-Valle M., Serment-Guerrero J., 1998, SOS induction by gamma-radiation in Escherichia coli strains defective in repair and/or recombination mechanisms., Mutagenesis 13(6):637-41
[3] Courcelle J., Khodursky A., Peter B., Brown PO., Hanawalt PC., 2001, Comparative gene expression profiles following UV exposure in wild-type and SOS-deficient Escherichia coli., Genetics 158(1):41-64
[4] Cupido M., Bridges BA., 1985, Uvr-independent repair of 8-methoxypsoralen crosslinks in Escherichia coli: evidence for a recombinational process., Mutat Res 146(2):135-41
[5] Dunman PM., Ren L., Rahman MS., Palejwala VA., Murphy HS., Volkert MR., Humayun MZ., 2000, Escherichia coli cells defective for the recN gene display constitutive elevation of mutagenesis at 3,N(4)-ethenocytosine via an SOS-induced mechanism., Mol Microbiol 37(3):680-6
[6] Keyamura K., Sakaguchi C., Kubota Y., Niki H., Hishida T., 2013, RecA protein recruits structural maintenance of chromosomes (SMC)-like RecN protein to DNA double-strand breaks., J Biol Chem 288(41):29229-37
[7] Lloyd RG., Buckman C., 1991, Overlapping functions of recD, recJ and recN provide evidence of three epistatic groups of genes in Escherichia coli recombination and DNA repair., Biochimie 73(2-3):313-20
[8] Lloyd RG., Picksley SM., Prescott C., 1983, Inducible expression of a gene specific to the RecF pathway for recombination in Escherichia coli K12., Mol Gen Genet 190(1):162-7
[9] Odsbu I., Skarstad K., 2014, DNA compaction in the early part of the SOS response is dependent on RecN and RecA., Microbiology 160(Pt 5):872-82
[10] Picksley SM., Attfield PV., Lloyd RG., 1984, Repair of DNA double-strand breaks in Escherichia coli K12 requires a functional recN product., Mol Gen Genet 195(1-2):267-74
[11] Rostas K., Morton SJ., Picksley SM., Lloyd RG., 1987, Nucleotide sequence and LexA regulation of the Escherichia coli recN gene., Nucleic Acids Res 15(13):5041-9
[12] Sargentini NJ., Smith KC., 1988, Genetic and phenotypic analyses indicating occurrence of the recN262 and radB101 mutations at the same locus in Escherichia coli., J Bacteriol 170(5):2392-4
[13] Sargentini NJ., Smith KC., 1986, Quantitation of the involvement of the recA, recB, recC, recF, recJ, recN, lexA, radA, radB, uvrD, and umuC genes in the repair of X-ray-induced DNA double-strand breaks in Escherichia coli., Radiat Res 107(1):58-72
[14] Sargentini NJ., Smith KC., 1983, Characterization of an Escherichia coli mutant (radB101) sensitive to gamma and uv radiation, and methyl methanesulfonate., Radiat Res 93(3):461-78
[15] Takahashi NK., Kusano K., Yokochi T., Kitamura Y., Yoshikura H., Kobayashi I., 1993, Genetic analysis of double-strand break repair in Escherichia coli., J Bacteriol 175(16):5176-85
[16] Vickridge E., Planchenault C., Cockram C., Junceda IG., Espeli O., 2017, Management of E. coli sister chromatid cohesion in response to genotoxic stress., Nat Commun 8:14618
[17] Warr AR., Klimova AN., Nwaobasi AN., Sandler SJ., 2018, Protease-deficient SOS constitutive cells have RecN-dependent cell division phenotypes., Mol Microbiol
[18] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Mu¿¿iz-Rascado L, Garc¿¿a-Sotelo JS, Weiss V, Solano-Lira H, Mart¿¿nez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hern¿¿ndez S, Alquicira-Hern¿¿ndez K, L¿¿pez-Fuentes A, Porr¿¿n-Sotelo L, Huerta AM, Bonavides-Mart¿¿nez C, Balderas-Mart¿¿nez YI, Pannier L, Olvera M, Labastida A, Jim¿¿nez-Jacinto V, Vega-Alvarado L, Del Moral-Ch¿¿vez V, Hern¿¿ndez-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] Almeida E., Fuentes JL., Cuetara E., Prieto E., Llagostera M., 2010, Amifostine protection against induced DNA damage in gamma-irradiated Escherichia coli cells depend on recN DNA repair gene product activity., Environ Toxicol 25(2):130-6

[2] Brena-Valle M., Serment-Guerrero J., 1998, SOS induction by gamma-radiation in Escherichia coli strains defective in repair and/or recombination mechanisms., Mutagenesis 13(6):637-41

[3] Courcelle J., Khodursky A., Peter B., Brown PO., Hanawalt PC., 2001, Comparative gene expression profiles following UV exposure in wild-type and SOS-deficient Escherichia coli., Genetics 158(1):41-64

[4] Cupido M., Bridges BA., 1985, Uvr-independent repair of 8-methoxypsoralen crosslinks in Escherichia coli: evidence for a recombinational process., Mutat Res 146(2):135-41

[5] Dunman PM., Ren L., Rahman MS., Palejwala VA., Murphy HS., Volkert MR., Humayun MZ., 2000, Escherichia coli cells defective for the recN gene display constitutive elevation of mutagenesis at 3,N(4)-ethenocytosine via an SOS-induced mechanism., Mol Microbiol 37(3):680-6

[6] Keyamura K., Sakaguchi C., Kubota Y., Niki H., Hishida T., 2013, RecA protein recruits structural maintenance of chromosomes (SMC)-like RecN protein to DNA double-strand breaks., J Biol Chem 288(41):29229-37

[7] Lloyd RG., Buckman C., 1991, Overlapping functions of recD, recJ and recN provide evidence of three epistatic groups of genes in Escherichia coli recombination and DNA repair., Biochimie 73(2-3):313-20

[8] Lloyd RG., Picksley SM., Prescott C., 1983, Inducible expression of a gene specific to the RecF pathway for recombination in Escherichia coli K12., Mol Gen Genet 190(1):162-7

[9] Odsbu I., Skarstad K., 2014, DNA compaction in the early part of the SOS response is dependent on RecN and RecA., Microbiology 160(Pt 5):872-82

[10] Picksley SM., Attfield PV., Lloyd RG., 1984, Repair of DNA double-strand breaks in Escherichia coli K12 requires a functional recN product., Mol Gen Genet 195(1-2):267-74

[11] Rostas K., Morton SJ., Picksley SM., Lloyd RG., 1987, Nucleotide sequence and LexA regulation of the Escherichia coli recN gene., Nucleic Acids Res 15(13):5041-9

[12] Sargentini NJ., Smith KC., 1988, Genetic and phenotypic analyses indicating occurrence of the recN262 and radB101 mutations at the same locus in Escherichia coli., J Bacteriol 170(5):2392-4

[13] Sargentini NJ., Smith KC., 1986, Quantitation of the involvement of the recA, recB, recC, recF, recJ, recN, lexA, radA, radB, uvrD, and umuC genes in the repair of X-ray-induced DNA double-strand breaks in Escherichia coli., Radiat Res 107(1):58-72

[14] Sargentini NJ., Smith KC., 1983, Characterization of an Escherichia coli mutant (radB101) sensitive to gamma and uv radiation, and methyl methanesulfonate., Radiat Res 93(3):461-78

[15] Takahashi NK., Kusano K., Yokochi T., Kitamura Y., Yoshikura H., Kobayashi I., 1993, Genetic analysis of double-strand break repair in Escherichia coli., J Bacteriol 175(16):5176-85

[16] Vickridge E., Planchenault C., Cockram C., Junceda IG., Espeli O., 2017, Management of E. coli sister chromatid cohesion in response to genotoxic stress., Nat Commun 8:14618

[17] Warr AR., Klimova AN., Nwaobasi AN., Sandler SJ., 2018, Protease-deficient SOS constitutive cells have RecN-dependent cell division phenotypes., Mol Microbiol

[18] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Mu¿¿iz-Rascado L, Garc¿¿a-Sotelo JS, Weiss V, Solano-Lira H, Mart¿¿nez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hern¿¿ndez S, Alquicira-Hern¿¿ndez K, L¿¿pez-Fuentes A, Porr¿¿n-Sotelo L, Huerta AM, Bonavides-Mart¿¿nez C, Balderas-Mart¿¿nez YI, Pannier L, Olvera M, Labastida A, Jim¿¿nez-Jacinto V, Vega-Alvarado L, Del Moral-Ch¿¿vez V, Hern¿¿ndez-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.