Substrate-level phosphorylation

METPO:1000804 · CLASS · REVIEWED

A metabolism in which ATP is formed directly by transfer of a phosphoryl group from a substrate to ADP.

Substrate-level phosphorylation direct ATP formation

DOI-backed graph connecting high-energy phosphorylated intermediates, kinase reactions, ADP phosphorylation, and ATP formation.

Substrate-level phosphorylation direct ATP formation Interactive directed graph showing evidence-backed causal relationships for Substrate-level phosphorylation.

Edge evidence

  • Substrate-level phosphorylation occurs in fermentative condition biolink:occurs_in

    SLP is a major ATP source in fermentative energy metabolism.

    • DOI:10.1111/1751-7915.13746 main sources of energy under fermentative conditions Supports fermentative context for SLP.
  • high-energy phosphorylated intermediate donates phosphoryl group to ADP

    SLP transfers phosphoryl groups from metabolic intermediates to ADP.

    • DOI:10.1111/1751-7915.13746 transferring a phosphate group to ADP Supports direct phosphoryl transfer to ADP.
  • kinase reaction produces ATP METPO:2000202

    Kinase reactions convert phosphorylated intermediates and ADP to ATP.

    • DOI:10.1111/1751-7915.13746 kinase-catalysed reactions can be applied for SLP Supports kinase-mediated ATP formation.
  • acetyl phosphate substrate for acetate kinase

    Acetyl phosphate is converted by acetate kinase during acetate dissimilation.

    • DOI:10.1128/MMBR.69.1.12-50.2005 Acetyl phosphate ... high-energy intermediate Supports acetyl phosphate as the high-energy acetate-switch intermediate.
  • acetate kinase produces acetate METPO:2000202

    Acetate kinase forms acetate from acetyl phosphate.

    • DOI:10.1128/MMBR.69.1.12-50.2005 phosphotransacetylase [PTA], acetate kinase [ACK] Supports acetate kinase as a central acetate-switch component.
  • acetate kinase produces ATP METPO:2000202

    Acetate kinase contributes ATP formation through substrate-level phosphorylation.

    • DOI:10.1111/1751-7915.13746 acetyl-phosphate to acetate Review lists acetyl-phosphate to acetate among SLP energy-conserving reactions.
  • anaerobiosis / low oxygen enables fermentation RO:0002327

    Absence of oxygen enables fermentative metabolism.

    • DOI:10.1093/femsre/fuae016 Fermentation is a type of metabolism carried out by organisms in environments without oxygen.
  • fermentation produces ATP via Substrate-level phosphorylation

    In fermentation, ATP is produced by substrate-level phosphorylation.

    • DOI:10.1093/femsre/fuae016 ATP is produced by substrate-level phosphorylation; strong definitional edge.
  • AckA-Pta pathway allows ATP production via Substrate-level phosphorylation

    The AckA-Pta reaction set allows ATP production via substrate-level phosphorylation.

    • DOI:10.1042/ETLS20220092 AckA-Pta, a set of reactions that allows ATP production via substrate-level phosphorylation.
  • carbamate kinase (arginine deiminase pathway) generates ATP via Substrate-level phosphorylation

    Carbamate kinase in the arginine deiminase pathway is an additional SLP route for ATP production.

    • DOI:10.1039/d4cb00099d The carbamate kinase reaction has been reported to be effective for ATP production in several acetogens.

Provenance

Source
METPO (2025-11-25)
Definition source
DOI:10.1111/1751-7915.13746

Parent traits (1)

kg-microbe context

Matched 1 kg-microbe node via direct_metpo.

  • METPO:1000804 [+0.098, -0.513, -1.357, -0.315, …]

512-dim DeepWalkSkipGramEnsmallen embedding from kg-microbe (2026-04-25).

Nearest neighbors in embedding space

Top-8 cosine-similar METPO traits from the 2026-04-25 deepwalk (512-D).

Curation history

  1. · SEEDED_FROM_METPO · seed_from_metpo

    imported from data/raw/metpo.owl (CLASS)

  2. · ADDED_CAUSAL_GRAPH · codex

    Added DOI-backed causal graph for direct phosphoryl transfer to ADP and acetate kinase-linked ATP formation.

  3. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 3 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (METPO:2000202×3).

  4. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (biolink:occurs_in×1).

  5. · GROUND_CAUSAL_NODES · claude

    Grounded 1 causal-node grounding field(s) via mappings/node_grounding.tsv (GO:0016301×1).

  6. · GROUND_CAUSAL_NODES · claude

    Grounded 1 causal-node grounding field(s) via mappings/node_grounding.tsv (UniProtKB:A0A081KVG3×1).

  7. · GROUND_CAUSAL_NODES · claude

    Grounded 2 causal-node grounding field(s) via mappings/node_grounding.tsv (CHEBI:16761×1, CHEBI:15350×1).

  8. · ENRICH_CAUSAL_GRAPH · claude

    Added 4 evidence-backed generic edges (4 new nodes) from the deep-research report.

  9. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (RO:0002327×1).

  10. · GROUND_CAUSAL_NODES · claude

    Grounded 1 causal-node grounding field(s) via mappings/node_grounding.tsv (GO:0006113×1).