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| Synonyms: HcaR, HcaR-3-phenylpropanoate |
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Summary:
HcaR, "hydrocinnamic acid regulator," directly regulates genes involved in 3-phenylpropionate (also called hydrocinnamic acid) catabolism.Proteome analyses have shown that HcaR regulates the production of 30 proteins involved in several processes; however, it is unknown whether this regulation is direct or indirect [1]. HcaR, which belongs to the LysR family, shows a helix-turn-helix motif in the N-terminal domain and a multimerization motif in the C-terminal domain [2]. It is not currently known how many monomers form the multimeric complex. A putative HcaR DNA-binding site sequence of 13 bp, matching the binding motif of LysR-type regulators, has been identified [2]. Homologous proteins 100% identical to HcaR have been found in pathogenic Escherichia coli strains, including O157:H7, and in Shigella flexneri [1]. The hcaR gene, which is transcribed divergently from an HcaR-regulated operon, is induced during stationary phase in an RpoS-independent manner, whereas it is repressed in the presence of glucose [3]and in the absence of oxygen through the indirect effect of ArcA [1] Read more > |
| Transcription factor |  |
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| TF conformation(s): |
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| Evolutionary Family: | LysR | |||||||||||||||||||||
| TFBs length: | 13 | |||||||||||||||||||||
| TFBs symmetry: | inverted-repeat | |||||||||||||||||||||
| Connectivity class: | Local Regulator | |||||||||||||||||||||
| Gene name: | hcaR | |||||||||||||||||||||
| Genome position: | 2668006-2668896 | |||||||||||||||||||||
| Length: | 891 bp / 296 aa | |||||||||||||||||||||
| Operon name: | hcaR | |||||||||||||||||||||
| TU(s) encoding the TF: |
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| Regulon |
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| Regulated gene(s) | hcaB, hcaC, hcaD, hcaE, hcaF, hcaR | ||||||
| Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
carbon compounds (6)
Transcription related (1)
activator (1)
repressor (1)
operon (1)
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| Regulated operon(s) | hcaEFCBD, hcaR | ||||||
| First gene in the operon(s) | hcaE, hcaR | ||||||
| Simple and complex regulons | HcaR | ||||||
| Simple and complex regulatory phrases | Regulatory phrase (List of promoters regulated by the phrase) | ||||||
| Transcription factor regulation |
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Transcription factor binding sites (TFBSs) arrangements
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| Functional conformation | Function | Promoter | Sigma factor | Central Rel-Pos | Distance to first Gene | Genes | Sequence | LeftPos | RightPos | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | References | |
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| HcaR-3-phenylpropanoate | activator | hcaEp | nd | -42.0 | -92.0 | hcaE, hcaF, hcaC, hcaB, hcaD |
tctcagctggTAGAAATTAACTAtttcacatat
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2668934 | 2668946 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | S | [1], [1], [2], [3] | |
| HcaR | repressor | hcaRp | nd | 25.0 | -44.0 | hcaR |
atatgtgaaaTAGTTAATTTCTAccagctgaga
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2668934 | 2668946 | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | S | [1], [1], [2], [3] |
| Evolutionary conservation of regulatory elements | |
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| Promoter-target gene evolutionary conservation |
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| Reference(s) |
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[EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis