EraR (PA1980) is a NarL/FixJ-family two-component response regulator of Pseudomonas aeruginosa with an N-terminal receiver domain and a C-terminal LuxR-type helix-turn-helix DNA-binding domain. It belongs to the regulatory hierarchy that controls the pyrroloquinoline quinone-dependent ethanol oxidation system; the response regulator of this system (described as ExaE in strain ATCC 17933) works with a cognate histidine sensor kinase to control transcription from the quinoprotein ethanol dehydrogenase (exaA) promoter.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0000160 phosphorelay signal transduction system | IEA GO_REF:0000002 | ACCEPT | Summary: InterPro2GO mapping from the receiver domain. Reason: EraR has a phosphoacceptor receiver domain and acts with a cognate histidine sensor kinase. Supporting Evidence: file:PSEAE/eraR/eraR-uniprot.txt PF00072; Response_reg |
| GO:0000976 transcription cis-regulatory region binding | IBA GO_REF:0000033 | ACCEPT | Summary: IBA from PTN008449896 (seeds E. coli NarL and P. aeruginosa NarL). Reason: EraR has the LuxR-type HTH DNA-binding domain of this clade; no direct binding data, so the generic term is as precise as warranted. Supporting Evidence: file:PSEAE/eraR/eraR-uniprot.txt PF00196; GerE |
| GO:0000976 transcription cis-regulatory region binding | IEA GO_REF:0000002 | ACCEPT | Summary: InterPro2GO (WalR-like) mapping. Reason: Consistent with the IBA row and the LuxR-type DNA-binding domain. Supporting Evidence: file:PSEAE/eraR/eraR-uniprot.txt PF00196; GerE |
| GO:0003677 DNA binding | IEA GO_REF:0000120 | TOO GENERAL | Summary: InterPro/UniRule mapping to DNA binding. Reason: GO:0000976, accepted in this review, is_a GO:0003677. Supporting Evidence: file:PSEAE/eraR/eraR-uniprot.txt PF00196; GerE |
| GO:0003700 DNA-binding transcription factor activity | IBA GO_REF:0000033 | ACCEPT | Summary: IBA from PTN008449896 (seeds E. coli NarL, RcsB, BglJ and P. aeruginosa NarL). Reason: Appropriate for a LuxR-type response regulator. Unlike rocA1, the activator role rests only on an abstract that names ExaE rather than PA1980, so the generic term is kept rather than refined to an activator term. Supporting Evidence: PMID:12686116 Transcription from the QEDH (exaA) promoter is regulated by a two component system: a histidine sensor kinase (ExaD), which is presumably located in the cytoplasm, and a response regulator (ExaE). |
| GO:0006351 DNA-templated transcription | IEA GO_REF:0000104 | MARK AS OVER ANNOTATED | Summary: UniRule keyword-based IEA. Reason: A response regulator regulates transcription; it is not part of the transcription machinery. Supporting Evidence: file:PSEAE/eraR/eraR-uniprot.txt PF00196; GerE |
| GO:0006355 regulation of DNA-templated transcription | IBA GO_REF:0000033 | TOO GENERAL | Summary: IBA from the PTN008449896 GO:0006355 IBD (9 seeds). eraR is one of them (expected, not circular); the IBD stands on the seven characterised regulators without it. Reason: GO:0045893 positive regulation of DNA-templated transcription, accepted in this review, is_a GO:0006355. Supporting Evidence: PMID:12686116 Transcription from the QEDH (exaA) promoter is regulated by a two component system: a histidine sensor kinase (ExaD), which is presumably located in the cytoplasm, and a response regulator (ExaE). |
| GO:0006355 regulation of DNA-templated transcription | IEA GO_REF:0000120 | TOO GENERAL | Summary: InterPro/UniRule mapping. Reason: GO:0045893, accepted in this review, is_a GO:0006355. Supporting Evidence: file:PSEAE/eraR/eraR-uniprot.txt PF00196; GerE |
| GO:0045893 positive regulation of DNA-templated transcription | IMP PMID:12686116 The ethanol oxidation system and its regulation in Pseudomon... | ACCEPT | Summary: PseudoCAP IMP to a review abstract (strain ATCC 17933) and one of the nine seeds of the PTN008449896 GO:0006355 IBD. Seed verdict UNVERIFIABLE: the abstract names the response regulator ExaE, not PA1980, and does not show the mutant data. Reason: Accepted in deference to the curator, who coded the row from the full review written by the laboratory that did the genetics; the claim (the response regulator is required for exaA transcription) fits the domain architecture and the abstract. No defect is filed because nothing in the abstract positively indicates an error. Supporting Evidence: PMID:12686116 Transcription from the QEDH (exaA) promoter is regulated by a two component system: a histidine sensor kinase (ExaD), which is presumably located in the cytoplasm, and a response regulator (ExaE). |
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Download this section (compressed HTML)Q: Is the ExaE response regulator described in strain ATCC 17933 the PAO1 PA1980 product, and does EraR bind the exaA promoter directly?
Experiment: EMSA of purified (phosphorylated) EraR on the exaA promoter and an exaA-lacZ reporter in a PAO1 PA1980 deletion grown on ethanol.
Type: EMSA / reporter assay
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