UppS is the soluble undecaprenyl-diphosphate synthase of Pseudomonas putida KT2440. It condenses eight isopentenyl diphosphate molecules with farnesyl diphosphate to make the C55 undecaprenyl diphosphate precursor of the lipid carrier used to assemble peptidoglycan, lipopolysaccharide, and other bacterial cell-envelope glycans.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0000287 magnesium ion binding | IEA GO_REF:0000120 | ACCEPT | Summary: Correct cofactor-binding annotation for UppS. Reason: The UniProt HAMAP assignment specifies two magnesium ions per subunit. Supporting Evidence: file:PSEPK/uppS/uppS-uniprot.txt Binds 2 magnesium ions per subunit. |
| GO:0004659 prenyltransferase activity | IEA GO_REF:0000120 | TOO GENERAL | Summary: True parent of the accepted undecaprenyl-specific activity; uninformative here. Reason: GO:0008834 (accepted on this record) is a descendant of GO:0004659 (GO:0008834 is_a GO:0045547 is_a GO:0120531 prenyl diphosphate synthase activity is_a GO:0004659 is_a GO:0016765), so this row is entailed and adds no information. Supporting Evidence: file:PSEPK/uppS/uppS-uniprot.txt Catalyzes the sequential condensation of isopentenyl diphosphate (IPP) with (2E,6E)-farnesyl diphosphate (E,E-FPP) to yield (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E,38E)-undecaprenyl diphosphate (di- trans,octa-cis-UPP). |
| GO:0005829 cytosol | IEA GO_REF:0000118 | ACCEPT | Summary: Cytosolic location of the soluble UppS enzyme, inherited by TreeGrafter. Reason: TreeGrafter IEA from the PTHR10291 tree, where the proteobacterial UppS node carries cytosol from E. coli UppS, which is purified from the soluble fraction and is cytosolic by IDA (genes/ECOLI/ispU). Q88MH6 has no transmembrane segment or signal peptide and shares the UPP synthase family assignment; no evidence points to a different compartment. Supporting Evidence: PMID:9882662 was purified from the soluble fraction of Escherichia coli file:PSEPK/uppS/uppS-uniprot.txt SIMILARITY: Belongs to the UPP synthase family. |
| GO:0008834 ditrans,polycis-undecaprenyl-diphosphate synthase [(2E,6E)-farnesyl-diphosphate specific] activity | IEA GO_REF:0000120 | ACCEPT | Summary: Correct and specific core molecular function. Reason: The exact UniProt reaction produces di-trans,octa-cis-undecaprenyl diphosphate. Supporting Evidence: file:PSEPK/uppS/uppS-uniprot.txt Catalyzes the sequential condensation of isopentenyl diphosphate (IPP) with (2E,6E)-farnesyl diphosphate (E,E-FPP) to yield (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E,38E)-undecaprenyl diphosphate (di- trans,octa-cis-UPP). |
| GO:0009252 peptidoglycan biosynthetic process | IEA GO_REF:0000104 | KEEP AS NON CORE | Summary: Valid downstream use of the carrier, but not the sole core process of UppS. Reason: UniRule transfer. Undecaprenyl phosphate carries peptidoglycan precursors, but it also supports lipopolysaccharide and other cell-envelope glycan synthesis, so this downstream process is kept as non-core, as for E. coli UppS. Supporting Evidence: file:PSEPK/uppS/uppS-uniprot.txt UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide. |
| GO:0016094 polyprenol biosynthetic process | IEA GO_REF:0000118 | ACCEPT | Summary: Correct core process annotation for synthesis of the C55 polyprenyl carrier precursor. Reason: TreeGrafter IEA from the PTHR10291 root node, where PAINT placed GO:0016094; the direct UppS product is the C55 polyprenyl diphosphate precursor of the carrier. Supporting Evidence: file:PSEPK/uppS/uppS-uniprot.txt UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide. |
| GO:0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups | IEA GO_REF:0000002 | TOO GENERAL | Summary: True parent of the accepted undecaprenyl-specific activity; uninformative here. Reason: GO:0008834 (accepted on this record) is a descendant of GO:0016765 (GO:0008834 is_a GO:0045547 is_a GO:0120531 prenyl diphosphate synthase activity is_a GO:0004659 is_a GO:0016765), so this row is entailed and adds no information. Supporting Evidence: file:PSEPK/uppS/uppS-uniprot.txt Catalyzes the sequential condensation of isopentenyl diphosphate (IPP) with (2E,6E)-farnesyl diphosphate (E,E-FPP) to yield (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E,38E)-undecaprenyl diphosphate (di- trans,octa-cis-UPP). |
| GO:0045547 ditrans,polycis-polyprenyl diphosphate synthase [(2E,6E)-farnesyl diphosphate specific] activity | IEA GO_REF:0000118 | TOO GENERAL | Summary: True parent of the accepted undecaprenyl-specific activity; uninformative here. Reason: GO:0008834 (accepted on this record) is a descendant of GO:0045547 (GO:0008834 is_a GO:0045547 is_a GO:0120531 prenyl diphosphate synthase activity is_a GO:0004659 is_a GO:0016765), so this row is entailed and adds no information. Supporting Evidence: file:PSEPK/uppS/uppS-uniprot.txt UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide. |
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Experiment: Quantify C55-PP and C55-P pools after controlled UppS depletion and measure the corresponding effects on peptidoglycan and lipopolysaccharide synthesis.
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