PP_5673 is a cytoplasmic DdlB-like D-alanine-D-alanine ligase predicted to catalyze ATP-dependent formation of the D-Ala-D-Ala peptidoglycan precursor. Its 304-residue sequence carries convergent HAMAP, Rhea, PANTHER, ATP-grasp, Ddl signature, and conserved catalytic-site support.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0000166 nucleotide binding | IEA GO_REF:0000104 | MARK AS OVER ANNOTATED | Summary: This broad term adds no information beyond the ATP-grasp prediction. Reason: ATP binding is the more informative nucleotide-binding annotation. |
| GO:0005524 ATP binding | IEA GO_REF:0000120 | KEEP AS NON CORE | Summary: ATP binding is supported by the retained ATP-grasp domain. Reason: ATP binding is required for catalysis but is not the defining function. Supporting Evidence: file:PSEPK/ddl/ddl-uniprot.txt /note="ATP-grasp" |
| GO:0005737 cytoplasm | IEA GO_REF:0000120 | ACCEPT | Summary: The predicted cytoplasmic localization is compatible with a Ddl-family protein. Reason: The UniProt record assigns PP_5673 to the cytoplasm. Supporting Evidence: file:PSEPK/ddl/ddl-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0008716 D-alanine-D-alanine ligase activity | IEA GO_REF:0000120 | ACCEPT | Summary: Accept the exact D-alanine-D-alanine ligase assignment. Reason: HAMAP MF_00047, RHEA:11224, EC 6.3.2.4, the ATP-grasp domain, DALA_DALA_LIGASE_1 signature, conserved binding sites, and PANTHER SF23 independently converge on a catalytically competent DdlB-like enzyme. Supporting Evidence: file:PSEPK/ddl/ddl-uniprot.txt PANTHER; PTHR23132:SF23; D-ALANINE--D-ALANINE LIGASE B |
| GO:0009252 peptidoglycan biosynthetic process | IEA GO_REF:0000120 | ACCEPT | Summary: Accept peptidoglycan biosynthesis as the pathway context. Reason: UniProt/HAMAP explicitly assigns the protein to cell-wall formation and the peptidoglycan-biosynthesis pathway, consistent with its exact Ddl reaction. Supporting Evidence: file:PSEPK/ddl/ddl-uniprot.txt PATHWAY: Cell wall biogenesis; peptidoglycan biosynthesis. |
| GO:0016881 acid-amino acid ligase activity | IEA GO_REF:0000117 | MARK AS OVER ANNOTATED | Summary: This broad ARBA term is not useful for discriminating PP_5673 function. Reason: This uninformative parent adds no value beyond the exact GO:0008716 D-alanine-D-alanine ligase reaction accepted for the same protein. |
| GO:0046872 metal ion binding | IEA GO_REF:0000002 | KEEP AS NON CORE | Summary: Divalent-metal binding is consistent with Ddl-family catalysis. Reason: UniProt predicts the conserved magnesium-binding positions. Supporting Evidence: file:PSEPK/ddl/ddl-uniprot.txt /ligand="Mg(2+)" |
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Download this section (compressed HTML)Q: Under which growth conditions does PP_5673 contribute relative to the other two KT2440 Ddl paralogs?
Experiment: Compare PP_5673 with Q88EV6 and Q88N74 by domain-resolved sequence alignment, complementation of a D-Ala-D-Ala auxotroph, purified-enzyme kinetics, and combinatorial depletion in KT2440.
Type: comparative sequence analysis, complementation, and enzymology
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