RegulonDB

Gene
Name:	uhpA
Synonym(s):	ECK3660, EG11051, b3669
Genome position(nucleotides):	3850136 <-- 3850726 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	58.88
External database links:

ASAP:	ABE-0011995
CGSC:	15437
ECHOBASE:	EB1044
ECOLIHUB:	uhpA
OU-MICROARRAY:	b3669
STRING:	511145.b3669
COLOMBOS:	uhpA

Gene

Name:

uhpA

Synonym(s):

ECK3660, EG11051, b3669

Genome position(nucleotides):

3850136 <-- 3850726 Genome Browser

Strand:

reverse

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

58.88

External database links:

ASAP:

CGSC:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Type

Positions

Sequence

137 -> 190

PLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELAR

3 -> 116

TVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVA

4 -> 112

VALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAV

131 -> 196

ASGRQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELARRMFDGW

54 -> 54

Type

Positions

Sequence

137 -> 190

PLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELAR

3 -> 116

TVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVA

4 -> 112

VALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAV

131 -> 196

ASGRQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELARRMFDGW

54 -> 54

155 -> 174

VKEIAAELGLSPKTVHVHRA

Multifun Terms (GenProtEC)

1 - metabolism --> 1.1 - carbon utilization --> 1.1.1 - carbon compounds

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 --> 3.1.2.4 - complex regulation --> 3.1.2.4.3 - two component regulatory systems (external signal)

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

Gene Ontology Terms (GO)

cellular_component

GO:0005737 - cytoplasm
GO:0005829 - cytosol

molecular_function

GO:0003677 - DNA binding

biological_process

GO:0006355 - regulation of transcription, DNA-templated
GO:0000160 - phosphorelay signal transduction system

RNA cis-regulatory element

Attenuation:	Transcriptional

RNA cis-regulatory element

Attenuation:

Transcriptional

	Type	Name	Post Left	Post Right	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
	promoter	TSS_4250	3850755		reverse	nd	[RS-EPT-CBR]	[15]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

TSS_4250

3850755

reverse

[RS-EPT-CBR]

[15]

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] Burland V., Plunkett G., Daniels DL., Blattner FR., 1993, DNA sequence and analysis of 136 kilobases of the Escherichia coli genome: organizational symmetry around the origin of replication., Genomics 16(3):551-61
[2] Dahl JL., Wei BY., Kadner RJ., 1997, Protein phosphorylation affects binding of the Escherichia coli transcription activator UhpA to the uhpT promoter., J Biol Chem 272(3):1910-9
[3] Friedrich MJ., Kadner RJ., 1987, Nucleotide sequence of the uhp region of Escherichia coli., J Bacteriol 169(8):3556-63
[4] Island MD., Wei BY., Kadner RJ., 1992, Structure and function of the uhp genes for the sugar phosphate transport system in Escherichia coli and Salmonella typhimurium., J Bacteriol 174(9):2754-62
[5] Merkel TJ., Nelson DM., Brauer CL., Kadner RJ., 1992, Promoter elements required for positive control of transcription of the Escherichia coli uhpT gene., J Bacteriol 174(9):2763-70
[6] Olekhnovich IN., Dahl JL., Kadner RJ., 1999, Separate contributions of UhpA and CAP to activation of transcription of the uhpT promoter of Escherichia coli., J Mol Biol 292(5):973-86
[7] Olekhnovich IN., Kadner RJ., 2002, Mutational scanning and affinity cleavage analysis of UhpA-binding sites in the Escherichia coli uhpT promoter., J Bacteriol 184(10):2682-91
[8] Pao GM., Saier MH., 1995, Response regulators of bacterial signal transduction systems: selective domain shuffling during evolution., J Mol Evol 40(2):136-54
[9] Parkinson JS., 1993, Signal transduction schemes of bacteria., Cell 73(5):857-71
[10] Parkinson JS., Kofoid EC., 1992, Communication modules in bacterial signaling proteins., Annu Rev Genet 26:71-112
[11] Stock AM., Robinson VL., Goudreau PN., 2000, Two-component signal transduction., Annu Rev Biochem 69:183-215
[12] Stock JB., Stock AM., Mottonen JM., 1990, Signal transduction in bacteria., Nature 344(6265):395-400
[13] Webber CA., Kadner RJ., 1995, Action of receiver and activator modules of UhpA in transcriptional control of the Escherichia coli sugar phosphate transport system., Mol Microbiol 15(5):883-93
[14] Webber CA., Kadner RJ., 1997, Involvement of the amino-terminal phosphorylation module of UhpA in activation of uhpT transcription in Escherichia coli., Mol Microbiol 24(5):1039-48
[15] 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] Burland V., Plunkett G., Daniels DL., Blattner FR., 1993, DNA sequence and analysis of 136 kilobases of the Escherichia coli genome: organizational symmetry around the origin of replication., Genomics 16(3):551-61

[2] Dahl JL., Wei BY., Kadner RJ., 1997, Protein phosphorylation affects binding of the Escherichia coli transcription activator UhpA to the uhpT promoter., J Biol Chem 272(3):1910-9

[3] Friedrich MJ., Kadner RJ., 1987, Nucleotide sequence of the uhp region of Escherichia coli., J Bacteriol 169(8):3556-63

[4] Island MD., Wei BY., Kadner RJ., 1992, Structure and function of the uhp genes for the sugar phosphate transport system in Escherichia coli and Salmonella typhimurium., J Bacteriol 174(9):2754-62

[5] Merkel TJ., Nelson DM., Brauer CL., Kadner RJ., 1992, Promoter elements required for positive control of transcription of the Escherichia coli uhpT gene., J Bacteriol 174(9):2763-70

[6] Olekhnovich IN., Dahl JL., Kadner RJ., 1999, Separate contributions of UhpA and CAP to activation of transcription of the uhpT promoter of Escherichia coli., J Mol Biol 292(5):973-86

[7] Olekhnovich IN., Kadner RJ., 2002, Mutational scanning and affinity cleavage analysis of UhpA-binding sites in the Escherichia coli uhpT promoter., J Bacteriol 184(10):2682-91

[8] Pao GM., Saier MH., 1995, Response regulators of bacterial signal transduction systems: selective domain shuffling during evolution., J Mol Evol 40(2):136-54

[9] Parkinson JS., 1993, Signal transduction schemes of bacteria., Cell 73(5):857-71

[10] Parkinson JS., Kofoid EC., 1992, Communication modules in bacterial signaling proteins., Annu Rev Genet 26:71-112

[11] Stock AM., Robinson VL., Goudreau PN., 2000, Two-component signal transduction., Annu Rev Biochem 69:183-215

[12] Stock JB., Stock AM., Mottonen JM., 1990, Signal transduction in bacteria., Nature 344(6265):395-400

[13] Webber CA., Kadner RJ., 1995, Action of receiver and activator modules of UhpA in transcriptional control of the Escherichia coli sugar phosphate transport system., Mol Microbiol 15(5):883-93

[14] Webber CA., Kadner RJ., 1997, Involvement of the amino-terminal phosphorylation module of UhpA in activation of uhpT transcription in Escherichia coli., Mol Microbiol 24(5):1039-48

[15] 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.