GenePage for the ypdA gene of Escherichia coli K-12

Primary Gene Name: ypdA
EcoGene Accession Number: EG14148
K-12 Gene Accession Number: ECK2376
MG1655 Gene Identifier: b2380
Gene Name Mnemonic: Systematic nomenclature
Alternate Gene Symbols: None
Description: Sensor kinase regulating yhjX; pyruvate-responsive YpdAB two-component system
  # bp Upstream # bp Downstream
MW: 62657.47 ---------565 aa Pre-Run BlastP UniProt
Pre-Run BlastP NR+Env
Left End: 2498671
Left Intergenic Region

Name: alaC_ypdA

Length: 375 bp gap

Orientation: Divergent

Left_end: 2498296

Right_end: 2498670

Centisome: 53.82

Genomic Address
Minute or Centisome (%) = 53.83
Right End: 2500368
Right Intergenic Region

Name: ypdA_ypdB

Length: 14 bp gap

Orientation: Codirectional+

Left_end: 2500369

Right_end: 2500382

Centisome: 53.87

YhjX is the only protein directly regulated by the pyruvate-sensing YpdAB two-component system: response regulator YpdB binds to the yhjX promoter region, YpdB overproduction increased yhjX expression 24-fold, and deletion of ypdABC prevented induction by the pyruvate in LB; the induction was restored by a ypdAB clone; YpdB overproduction indirectly increased yjiY expression 4-fold since yjiY has no YpdB binding site (Fried, 2013). The YpdAB and YehTU two-component regulators are paralogous; these two systems may be interconnected since they both regulate yjiY, directly by YehTU and indirectly by YpdAB; although not noted by the authors, both sytems also regulate yhjX, indirectly by YehTU and directly by YpdAB; the putative transporter genes yhjX and yjiY are the only two genes significantly regulated by YpdAB and YehTU (Fried, 2013). Caveat: experiments using overproduction of response regulators may cause artifactual cross-talk regulation. In addition to the C-terminal histidine protein kinase and ATPase domains, YpdA contains a central GAF domain. YpdA has six N-terminal transmembrane helices; helices 2-4 comprise a LytS-like domain. The alaC-ypdABC divergent promoter region binds ArcA and ArcA activates ypdABC expression (Federowicz, 2014).

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