{"id":"01126ecd-fdf8-589e-9095-adb216cde7ba","stable_key":"507ed066-fd6d-5722-9223-97b66302e7e3:glycine-s38-glycine-synthesis","predicate":"supports_tested","statement":"SLC25A38 loss reduced deuterated-serine incorporation into glycine and glycine-derived glutathione under low-B6 conditions.","claim_class":"mechanistic","status":"source_derived_draft","evidence_grade":"ungraded","direction":"context_dependent","is_public":true,"mechanism_event_id":"b20efbd7-448f-5e55-8a8b-8ab56fe56834","mechanism_event_label":"A mitochondrial cofactor problem reduced the cell's ability to make glycine.","subject":{"id":"4e146c00-9b97-55d6-ac1c-0a0261378be3","slug":"slc25a38","display_name":"Human SLC25A38","entity_type_key":"protein"},"object":{"id":"5b9e79c2-cb8f-50fb-af1c-b2bb15ede055","slug":"human-k562-serine-glycine-flux","display_name":"Serine-derived glycine synthesis in human K562 cells","entity_type_key":"cellular_process"},"evidence_count":1,"mechanism_event":{"id":"b20efbd7-448f-5e55-8a8b-8ab56fe56834","stable_key":"507ed066-fd6d-5722-9223-97b66302e7e3:glycine-s38-glycine-synthesis-event","event_type":"observed_relationship","label":"A mitochondrial cofactor problem reduced the cell's ability to make glycine.","description":"SLC25A38 loss reduced deuterated-serine incorporation into glycine and glycine-derived glutathione under low-B6 conditions.","status":"provisional","compartment":null,"participants":[{"entity":{"id":"4e146c00-9b97-55d6-ac1c-0a0261378be3","slug":"slc25a38","display_name":"Human SLC25A38","entity_type_key":"protein"},"role":"subject","stoichiometry":null,"state_label":"","sequence_order":0,"notes":""},{"entity":{"id":"5b9e79c2-cb8f-50fb-af1c-b2bb15ede055","slug":"human-k562-serine-glycine-flux","display_name":"Serine-derived glycine synthesis in human K562 cells","entity_type_key":"cellular_process"},"role":"target","stoichiometry":null,"state_label":"","sequence_order":1,"notes":""},{"entity":{"id":"2b507258-430c-51fe-9fd2-e510c2c197a9","slug":"glycine","display_name":"Glycine","entity_type_key":"small_molecule"},"role":"context_participant","stoichiometry":null,"state_label":"","sequence_order":2,"notes":""},{"entity":{"id":"2559e210-62e5-5cd8-bc77-538a9aecd7c8","slug":"shmt2","display_name":"SHMT2","entity_type_key":"protein"},"role":"context_participant","stoichiometry":null,"state_label":"","sequence_order":3,"notes":""},{"entity":{"id":"6b656ff5-9532-5da4-8eea-8ca163a48649","slug":"pyridoxal-phosphate","display_name":"PLP","entity_type_key":"small_molecule"},"role":"context_participant","stoichiometry":null,"state_label":"","sequence_order":4,"notes":""},{"entity":{"id":"b44c9e27-4bbb-52d3-a022-14cddded5073","slug":"glutathione","display_name":"GSH","entity_type_key":"small_molecule"},"role":"context_participant","stoichiometry":null,"state_label":"","sequence_order":5,"notes":""},{"entity":{"id":"c882cd0b-9d83-5b07-bd1c-fe4d45657dcb","slug":"l-serine","display_name":"L-Serine","entity_type_key":"small_molecule"},"role":"context_participant","stoichiometry":null,"state_label":"","sequence_order":6,"notes":""}]},"contexts":[{"dimension":"availability_state","value_text":"machinery_impairment","comparator":null,"unit":null,"notes":"Imported condition classification; unverified.","entity":null},{"dimension":"evidence_access","value_text":"Primary full text","comparator":null,"unit":null,"notes":"","entity":null},{"dimension":"experimental_model","value_text":"Human K562 knockout, isotope tracing and controlled B6 culture conditions.","comparator":null,"unit":null,"notes":"","entity":null},{"dimension":"limitations","value_text":"Tracing reflects pathway flux; it does not establish direct PLP transport by SLC25A38.","comparator":null,"unit":null,"notes":"","entity":null},{"dimension":"nutrient_topic","value_text":"Glycine collection; species, compartment, exposure, co-substrates and manipulation remain explicit.","comparator":null,"unit":null,"notes":"","entity":{"slug":"glycine","display_name":"Glycine","entity_type_key":"small_molecule"}},{"dimension":"plain_language","value_text":"A mitochondrial cofactor problem reduced the cell's ability to make glycine.","comparator":null,"unit":null,"notes":"","entity":null},{"dimension":"primary_references","value_text":"SLC25A38 is required for mitochondrial pyridoxal 5'-phosphate (PLP) accumulation. · 2025 · https://pubmed.ncbi.nlm.nih.gov/39856062/ · DOI 10.1038/s41467-025-56130-3","comparator":null,"unit":null,"notes":"","entity":null},{"dimension":"trigger_kind","value_text":"machinery_impairment","comparator":null,"unit":null,"notes":"Imported condition classification; unverified.","entity":null}],"evidence":[{"id":"85361d11-3aa6-5e15-9d4d-1524c4abd439","evidence_kind":"source_excerpt","locator":"Lines 114-120","start_line":114,"end_line":120,"excerpt":"## glycine-s38-glycine-synthesis\nA mitochondrial cofactor problem reduced the cell's ability to make glycine.\nSLC25A38 loss reduced deuterated-serine incorporation into glycine and glycine-derived glutathione under low-B6 conditions.\nModel: Human K562 knockout, isotope tracing and controlled B6 culture conditions.\nLimitations: Tracing reflects pathway flux; it does not establish direct PLP transport by SLC25A38.\nEvidence access: Primary full text\nSLC25A38 is required for mitochondrial pyridoxal 5'-phosphate (PLP) accumulation. · 2025 · https://pubmed.ncbi.nlm.nih.gov/39856062/ · DOI 10.1038/s41467-025-56130-3","model_system":"Human K562 knockout, isotope tracing and controlled B6 culture conditions.","directness":"reported_statement","verification_status":"source_derived_draft","notes":"Original curation paraphrase; evidence access and experimental limitations specified.","relationship":"supports","weight":1.0,"link_notes":"","source":{"id":"7b2859d8-e2bf-51e7-8e32-0715c10cbc49","stable_key":"import-507ed066-fd6d-5722-9223-97b66302e7e3","title":"Glycine: supply, one-carbon allocation, receptors and cross-nutrient mechanisms (2026-09-19)","document_type":"imported_text","citation_label":"AI-assisted research curation; primary references, access levels and experimental limitations individually identified. Not publisher full text.","file_path":"","sha256":"4fabd2fc8e71ca156c91023e7340be3f5a02ae03e91d3a24b231c2adfb0de0aa","revision_id":"24801e49-34a8-53c3-bdf5-b59143441450","review_status":"unverified_draft","notes":""}}],"relations":[],"conflicts":[],"corrections":[],"research":null}