RegulonDB

Gene
Name:	nagC
Synonym(s):	ECK0664, EG10636, b0676, nagR
Genome position(nucleotides):	700374 <-- 701594 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	52.99
External database links:

ASAP:	ABE-0002299
CGSC:	31479
ECHOBASE:	EB0630
OU-MICROARRAY:	b0676
PortEco:	nagC
STRING:	511145.b0676
COLOMBOS:	nagC

Gene

Name:

nagC

Synonym(s):

ECK0664, EG10636, b0676, nagR

Genome position(nucleotides):

700374 <-- 701594 Genome Browser

Strand:

reverse

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

52.99

External database links:

ASAP:

CGSC:

ECHOBASE:

OU-MICROARRAY:

PortEco:

STRING:

COLOMBOS:

Type

Positions

Sequence

203 -> 204

25 -> 63

RLIDQYGPISRIQIAEQSQLAPASVTKITRQLIERGLIK

35 -> 44

RIQIAEQSQL

89 -> 392

IGVRLGRHDATITLFDLSSKVLAEEHYPLPERTQQTLEHALLNAIAQFIDSYQRKLRELIAISVILPGLVDPDSGKIHYMPHIQVENWGLVEALEERFKVTCFVGHDIRSLALAEHYFGASQDCEDSILVRVHRGTGAGIISNGRIFIGRNGNVGEIGHIQVEPLGERCHCGNFGCLETIAANAAIEQRVLNLLKQGYQSRVPLDDCTIKTICKAANKGDSLASEVIEYVGRHLGKTIAIAINLFNPQKIVIAGEITEADKVLLPAIESCINTQALKAFRTNLPVVRSELDHRSAIGAFALVKR

Type

Positions

Sequence

203 -> 204

25 -> 63

RLIDQYGPISRIQIAEQSQLAPASVTKITRQLIERGLIK

35 -> 44

RIQIAEQSQL

89 -> 392

Multifun Terms (GenProtEC)

1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.12 - amino sugar conversions

2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related

3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.2 - activator

3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.3 - repressor

3 - regulation --> 3.1 - type of regulation --> 3.1.3 - posttranscriptional --> 3.1.3.1 - translation attenuation and efficiency

3 - regulation --> 3.3 - genetic unit regulated --> 3.3.1 - operon

Gene Ontology Terms (GO)

cellular_component

GO:0005829 - cytosol

molecular_function

GO:0003677 - DNA binding
GO:0003700 - DNA-binding transcription factor activity

biological_process

GO:0005975 - carbohydrate metabolic process
GO:0006355 - regulation of transcription, DNA-templated

Transcriptional Regulation
	Display Regulation
Activated by:	CRP
Repressed by:	CRP, NagC

Transcriptional Regulation

Display Regulation

Activated by:

CRP

Repressed by:

CRP, NagC

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_792	700355	reverse	nd	[RS-EPT-CBR]	[11]
promoter	TSS_793	701039	reverse	nd	[RS-EPT-CBR]	[11]
promoter	TSS_794	701340	reverse	nd	[RS-EPT-CBR]	[11]
promoter	TSS_795	701360	reverse	nd	[RS-EPT-CBR]	[11]
promoter	TSS_796	701362	reverse	nd	[RS-EPT-CBR]	[11]
promoter	TSS_797	701364	reverse	nd	[RS-EPT-CBR]	[11]
promoter	TSS_798	701606	reverse	nd	[RS-EPT-CBR]	[11]
promoter	TSS_799	701647	reverse	nd	[RS-EPT-CBR]	[11]
promoter	TSS_801	702710	reverse	nd	[RS-EPT-CBR]	[11]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

TSS_792

700355

reverse

[RS-EPT-CBR]

[11]

promoter

TSS_793

701039

reverse

[RS-EPT-CBR]

[11]

promoter

TSS_794

701340

reverse

[RS-EPT-CBR]

[11]

promoter

TSS_795

701360

reverse

[RS-EPT-CBR]

[11]

promoter

TSS_796

701362

reverse

[RS-EPT-CBR]

[11]

promoter

TSS_797

701364

reverse

[RS-EPT-CBR]

[11]

promoter

TSS_798

701606

reverse

[RS-EPT-CBR]

[11]

promoter

TSS_799

701647

reverse

[RS-EPT-CBR]

[11]

promoter

TSS_801

702710

reverse

[RS-EPT-CBR]

[11]

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] Condemine G., Berrier C., Plumbridge J., Ghazi A., 2005, Function and expression of an N-acetylneuraminic acid-inducible outer membrane channel in Escherichia coli., J Bacteriol 187(6):1959-65
[2] Peri KG., Goldie H., Waygood EB., 1990, Cloning and characterization of the N-acetylglucosamine operon of Escherichia coli., Biochem Cell Biol 68(1):123-37
[3] Plumbridge J., 2001, DNA binding sites for the Mlc and NagC proteins: regulation of nagE, encoding the N-acetylglucosamine-specific transporter in Escherichia coli., Nucleic Acids Res 29(2):506-14
[4] Plumbridge J., 1995, Co-ordinated regulation of amino sugar biosynthesis and degradation: the NagC repressor acts as both an activator and a repressor for the transcription of the glmUS operon and requires two separated NagC binding sites., EMBO J 14(16):3958-65
[5] Plumbridge J., Kolb A., 1991, CAP and Nag repressor binding to the regulatory regions of the nagE-B and manX genes of Escherichia coli., J Mol Biol 217(4):661-79
[6] Plumbridge J., Pellegrini O., 2004, Expression of the chitobiose operon of Escherichia coli is regulated by three transcription factors: NagC, ChbR and CAP., Mol Microbiol 52(2):437-49
[7] Plumbridge JA., 1991, Repression and induction of the nag regulon of Escherichia coli K-12: the roles of nagC and nagA in maintenance of the uninduced state., Mol Microbiol 5(8):2053-62
[8] Plumbridge JA., 1989, Sequence of the nagBACD operon in Escherichia coli K12 and pattern of transcription within the nag regulon., Mol Microbiol 3(4):505-15
[9] Sohanpal BK., El-Labany S., Lahooti M., Plumbridge JA., Blomfield IC., 2004, Integrated regulatory responses of fimB to N-acetylneuraminic (sialic) acid and GlcNAc in Escherichia coli K-12., Proc Natl Acad Sci U S A 101(46):16322-7
[10] Sohanpal BK., Friar S., Roobol J., Plumbridge JA., Blomfield IC., 2007, Multiple co-regulatory elements and IHF are necessary for the control of fimB expression in response to sialic acid and N-acetylglucosamine in Escherichia coli K-12., Mol Microbiol 63(4):1223-36
[11] 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] Condemine G., Berrier C., Plumbridge J., Ghazi A., 2005, Function and expression of an N-acetylneuraminic acid-inducible outer membrane channel in Escherichia coli., J Bacteriol 187(6):1959-65

[2] Peri KG., Goldie H., Waygood EB., 1990, Cloning and characterization of the N-acetylglucosamine operon of Escherichia coli., Biochem Cell Biol 68(1):123-37

[3] Plumbridge J., 2001, DNA binding sites for the Mlc and NagC proteins: regulation of nagE, encoding the N-acetylglucosamine-specific transporter in Escherichia coli., Nucleic Acids Res 29(2):506-14

[4] Plumbridge J., 1995, Co-ordinated regulation of amino sugar biosynthesis and degradation: the NagC repressor acts as both an activator and a repressor for the transcription of the glmUS operon and requires two separated NagC binding sites., EMBO J 14(16):3958-65

[5] Plumbridge J., Kolb A., 1991, CAP and Nag repressor binding to the regulatory regions of the nagE-B and manX genes of Escherichia coli., J Mol Biol 217(4):661-79

[6] Plumbridge J., Pellegrini O., 2004, Expression of the chitobiose operon of Escherichia coli is regulated by three transcription factors: NagC, ChbR and CAP., Mol Microbiol 52(2):437-49

[7] Plumbridge JA., 1991, Repression and induction of the nag regulon of Escherichia coli K-12: the roles of nagC and nagA in maintenance of the uninduced state., Mol Microbiol 5(8):2053-62

[8] Plumbridge JA., 1989, Sequence of the nagBACD operon in Escherichia coli K12 and pattern of transcription within the nag regulon., Mol Microbiol 3(4):505-15

[9] Sohanpal BK., El-Labany S., Lahooti M., Plumbridge JA., Blomfield IC., 2004, Integrated regulatory responses of fimB to N-acetylneuraminic (sialic) acid and GlcNAc in Escherichia coli K-12., Proc Natl Acad Sci U S A 101(46):16322-7

[10] Sohanpal BK., Friar S., Roobol J., Plumbridge JA., Blomfield IC., 2007, Multiple co-regulatory elements and IHF are necessary for the control of fimB expression in response to sialic acid and N-acetylglucosamine in Escherichia coli K-12., Mol Microbiol 63(4):1223-36

[11] 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.