RegulonDB RegulonDB 11.2: Operon Form
   

gntP operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: gntP
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: gntP
Gene(s): gntP   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Klemm P., et al., 1996
Promoter
Name: gntPp
+1: 4551334
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 38
Sequence: tgatcagaggatgtgacattcatcgcaacaatggttgaccaatttacataacatatcgccCaaaataacaacggttcaacc
                           -35                        -10   +1                   
Evidence: [COMP-AINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Huerta AM., et al., 2003
[1] Klemm P., et al., 1996
Terminator(s)
Type: rho-independent
Sequence: tcatcagtctGAGCCTGCCATTGGCAGGCTCtggtgtcctt
Reference(s): [1] Klemm P., et al., 1996
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP activator gntPp 4551344 4551365 -20.5 tcatcgcaacAATGGTTGACCAATTTACATAAcatatcgccc nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] W [7]
proximal CRP-cyclic-AMP activator gntPp 4551365 4551386 -41.5 attgatcagaGGATGTGACATTCATCGCAACAatggttgacc nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] W [6], [7]
remote CRP-cyclic-AMP activator gntPp 4551450 4551471 -126.5 gaattctgaaATTGGTTAACCACATCACAAGAatttcactct nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] nd nd
[OxyR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote OxyR repressor gntPp 4551456 4551472 -130.0 cgaattctgaAATTGGTTAACCACATCacaagaattt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [3]
remote OxyR repressor gntPp 4551478 4551494 -152.0 cttttggtaaGACATGTCAACCCGAATtctgaaattg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [3]
[UxuR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal UxuR repressor gntPp 4551350 4551367 -24.5 attcatcgcaACAATGGTTGACCAATTTacataacata nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IMP-SITE-MUTATION] C [6]
remote UxuR repressor gntPp 4551456 4551473 -130.5 ccgaattctgAAATTGGTTAACCACATCacaagaattt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS] W [4], [5]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis

 [COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences

 [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins

 [EXP-IMP-SITE-MUTATION] Site mutation


Reference(s)    

 [1] Klemm P., Tong S., Nielsen H., Conway T., 1996, The gntP gene of Escherichia coli involved in gluconate uptake., J Bacteriol 178(1):61-7

 [2] 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

 [3] Zheng M., Wang X., Templeton LJ., Smulski DR., LaRossa RA., Storz G., 2001, DNA microarray-mediated transcriptional profiling of the Escherichia coli response to hydrogen peroxide., J Bacteriol 183(15):4562-70

 [4] Ritzenthaler P., Mata-Gilsinger M., 1982, Use of in vitro gene fusions to study the uxuR regulatory gene in Escherichia coli K-12: direction of transcription and regulation of its expression., J Bacteriol 150(3):1040-7

 [5] Robert-Baudouy J., Portalier R., Stoeber F., 1981, Regulation of hexuronate system genes in Escherichia coli K-12: multiple regulation of the uxu operon by exuR and uxuR gene products., J Bacteriol 145(1):211-20

 [6] Bates Utz C., Nguyen AB., Smalley DJ., Anderson AB., Conway T., 2004, GntP is the Escherichia coli Fructuronic acid transporter and belongs to the UxuR regulon., J Bacteriol 186(22):7690-6

 [7] Zheng D., Constantinidou C., Hobman JL., Minchin SD., 2004, Identification of the CRP regulon using in vitro and in vivo transcriptional profiling., Nucleic Acids Res 32(19):5874-93

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