PA2870 is an uncharacterised 525-aa inner-membrane diguanylate cyclase of Pseudomonas aeruginosa, with two predicted transmembrane helices flanking a periplasmic region and a C-terminal GGDEF domain carrying the GGEEF motif. Extracts of cells overexpressing PA2870 contain high levels of c-di-GMP, but overexpression does not change biofilm formation. A PAO1 deletion attaches less to surfaces in early biofilm assays, whereas an insertion mutant in PA14 had no consistent biofilm defect. The signal sensed by its periplasmic region and the processes that its c-di-GMP controls are unknown.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0005886 plasma membrane | IBA GO_REF:0000033 | ACCEPT | Summary: PM IBD at PTN002895351, seeded by membrane-anchored E. coli DGCs. This protein has predicted TM helices. Reason: Consistent with the predicted topology. Supporting Evidence: file:PSEAE/PA2870/PA2870-uniprot.txt FT TRANSMEM 20..40 FT /note="Helical" FT /evidence="ECO:0000256|SAM:Phobius" |
| GO:0005886 plasma membrane | IEA GO_REF:0000044 | ACCEPT | Summary: SubCell mapping (Cell inner membrane). The UniProt statement is ARBA-derived, but the Phobius TM helices support it independently. Reason: Same claim as the IBA row. Supporting Evidence: file:PSEAE/PA2870/PA2870-uniprot.txt FT TRANSMEM 20..40 FT /note="Helical" FT /evidence="ECO:0000256|SAM:Phobius" |
| GO:0043709 cell adhesion involved in single-species biofilm formation | IBA GO_REF:0000033 | MODIFY | Summary: IBA from PTN002895351, whose GO:0043709 IBD rests on one seed annotated acts_upstream_of_or_within. PA2870 is a DGC; its only biofilm data are a reduced-attachment deletion phenotype in PAO1 and negative results in PA14. Reason: A DGC regulates biofilm formation and does not take part in adhesion. The replacement is the unsigned GO:1900190, kept general because the gene-specific data are thin and inconsistent. The node-level GO_CENTRAL defect is recorded once in the PA1107 review. Propagation Review Root cause: TERM SCOPING PROBLEM Failure modes: ROLE CONFLATION Sources checked: PANTHER:PTN002895351 · PTN002895351 SOURCE WEAK OR INFERRED Single-seed IBD of a participation term on a DGC clade. The node-level defect is recorded once in the PA1107 review. UniProtKB:P31129 · E. coli DgcZ (sole seed) SUPPORTS SOURCE BUT NOT TARGET The seed annotation is IMP acts_upstream_of_or_within (EcoCyc, PMID:19460094; live QuickGO query 2026-11-05). It supports a regulatory role of DgcZ upstream of adhesion, not participation in adhesion by every DGC. For PA2870 the evidence supports at most regulation of biofilm formation. Proposed replacements: regulation of single-species biofilm formation Supporting Evidence: PMID:35935233 This was clearly observed for 7 mutations, PA0169, PA1120 (yfiN; Malone et al., 2010), PA2870, PA3702 PMID:20978535 Only the single-crossover mutation in PA1107 resulted in a consistent observable biofilm defect (not shown). file:PSEAE/PA2870/PA2870-notes.md P. aeruginosa expressing PA2870 and PA3343, two DGCs that produce high levels of c-di-GMP in our assay ( Table 1 ), do not cause an alteration in the biofilm phenotype. |
| GO:0052621 diguanylate cyclase activity | IBA GO_REF:0000033 | ACCEPT | Summary: IBA from the 19-seed PTN002895344 IBD; this gene is among its own sources because of its own IDA row, which is expected. Reason: Correct; the GGEEF motif is intact and overexpression raises cellular c-di-GMP. The IBD rests on many seeds with purified-enzyme evidence. Supporting Evidence: file:PSEAE/PA2870/PA2870-notes.md PA2771 GGEEF — PA2818 EAL — PA2870 GGEEF +(96) |
| GO:0052621 diguanylate cyclase activity | IDA PMID:16477007 Analysis of Pseudomonas aeruginosa diguanylate cyclases and ... | ACCEPT | Summary: PseudoCAP IDA and a seed of PTN002895344. Extracts of the overexpressing strain contained c-di-GMP above the detection limit (Table 1, full text read on PMC). Reason: Seed verdict SOUND. A whole-cell extract of an overexpressing strain is a crude assay, but it measures the product directly and the GGEEF motif is intact. Supporting Evidence: file:PSEAE/PA2870/PA2870-notes.md PA2771 GGEEF — PA2818 EAL — PA2870 GGEEF +(96) |
| GO:0052621 diguanylate cyclase activity | IEA GO_REF:0000003 | ACCEPT | Summary: EC 2.7.7.65 mapping. Reason: Same claim as the IBA and IDA rows. Supporting Evidence: file:PSEAE/PA2870/PA2870-notes.md PA2771 GGEEF — PA2818 EAL — PA2870 GGEEF +(96) |
| GO:1902201 negative regulation of bacterial-type flagellum-dependent cell motility | IBA GO_REF:0000033 | KEEP AS NON CORE | Summary: IBA from PTN002895351, seeded by four E. coli DGCs. No motility data exist for PA2870. Reason: Plausible for an active DGC and inherited from a node with gene-specific seeds, but there is no PA2870-specific evidence. Supporting Evidence: file:PSEAE/PA2870/PA2870-notes.md Table 1: "PA2771 GGEEF — PA2818 EAL — PA2870 GGEEF +(96)" |
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Download this section (compressed HTML)Experiment: Measure c-di-GMP synthesis by the purified PA2870 GGDEF domain with a GGAAF control, and phenotype a clean deletion and complemented strain for attachment, Pel/Psl production and motility.
What is not known — curated, literature-grounded statements of the open unknowns (the inverse of core functions).
Gap: The signal sensed by the periplasmic region of PA2870 and the c-di-GMP-dependent processes it controls are unknown; biofilm data on the mutant are thin and inconsistent.
BIOLOGY
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