{"gene":"PF3D7_0809500","run_date":"2026-09-08T12:51:27","timeline":{"discoveries":[{"year":2024,"finding":"PF3D7_0809500 (NuA4) is identified as a subunit of the P. falciparum NuA4-like complex (PfNuA4), which contains 11 of 13 conserved NuA4 subunits; the complex was confirmed by reciprocal pulldowns using PfEAF2, a shared component between NuA4 and SWR1 complexes.","method":"Reciprocal co-immunoprecipitation / pulldown with mass spectrometry identification","journal":"mSphere","confidence":"Medium","confidence_rationale":"Tier 2 / Weak — reciprocal pulldown confirms complex membership for NuA4 (PF3D7_0809500) as a subunit, but established by a single lab with a single primary method (co-IP/pulldown); no independent replication or orthogonal structural validation of this specific subunit.","pmids":["38564734"],"is_preprint":false,"attribution":[{"species":"Plasmodium falciparum","strain":""}]}],"current_model":"PF3D7_0809500 (NuA4) is established as a subunit of the P. falciparum PfNuA4 histone acetyltransferase complex, confirmed by reciprocal co-immunoprecipitation; beyond its membership in this complex, no further mechanistic details specific to PF3D7_0809500 itself have been experimentally established in the available literature."},"narrative":{"mechanistic_narrative":"PF3D7_0809500 (NuA4) is a subunit of the Plasmodium falciparum NuA4-like histone acetyltransferase complex (PfNuA4), which contains 11 of the 13 conserved NuA4 subunits and shares the PfEAF2 component with the SWR1 complex [PMID:38564734]. Its membership in this complex was established by reciprocal co-immunoprecipitation and pulldown with mass spectrometry [PMID:38564734]. Beyond [PMID:38564734], no further mechanistic detail specific to PF3D7_0809500 — its individual biochemical activity, structural contribution, or dedicated function within the complex — has been characterized in the available corpus.","teleology":[{"year":2024,"claim":"It was unknown whether P. falciparum assembles a NuA4-like histone acetyltransferase complex and which parasite proteins compose it; identifying PF3D7_0809500 as a component placed this gene within a defined chromatin-modifying machine.","evidence":"reciprocal co-immunoprecipitation/pulldown with mass spectrometry, using the shared NuA4/SWR1 component PfEAF2 as bait, in P. falciparum","pmids":["38564734"],"confidence":"Medium","gaps":["The specific molecular activity or structural role of PF3D7_0809500 within PfNuA4 is not resolved.","Complex membership rests on a single lab and a single primary method (co-IP/pulldown) without independent replication or orthogonal structural validation.","Substrate specificity, genomic targeting, and functional consequences attributable to PF3D7_0809500 itself are not addressed."],"attribution":[{"species":"Plasmodium falciparum","strain":""}]},{"year":null,"claim":"What PF3D7_0809500 contributes to PfNuA4 beyond being a structural subunit — its individual biochemical function, essentiality, and role in histone acetylation-driven gene regulation — remains unestablished.","evidence":"no direct experimental evidence in the available corpus","pmids":[],"confidence":"Medium","gaps":["No knockdown/knockout phenotype specific to PF3D7_0809500 reported.","No demonstration of catalytic or scaffolding function for this subunit.","No genome-wide occupancy or target-gene data for this subunit."],"attribution":[{"species":"Plasmodium falciparum","strain":""}]}],"mechanism_profile":{"molecular_activity":[],"localization":[],"pathway":[],"complexes":["PfNuA4 histone acetyltransferase complex"],"partners":["PFEAF2 (SHARED COMPONENT OF NUA4 AND SWR1 COMPLEXES)"],"other_free_text":["PF3D7_0809500 (NuA4) is established only as a subunit of the P. falciparum NuA4-like (PfNuA4) complex by reciprocal pulldown [#0]; the corpus establishes nothing about this gene beyond its membership in the complex."]}},"prefetch_data":{},"corpus_meta":[{"pmid":"38564734","id":"PMC_38564734","title":"MYST regulates DNA repair and forms a NuA4-like complex in the malaria parasite Plasmodium falciparum.","date":"2024","source":"mSphere","url":"https://pubmed.ncbi.nlm.nih.gov/38564734","citation_count":4,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["NuA4","PfNuA4"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false}],"cost":{"stage1":{"model":"claude-sonnet-4-6","input_tokens":3846,"output_tokens":423,"usd":0.008941,"stage1_stop_reason":"end_turn"},"stage2":{"model":"claude-opus-4-8","input_tokens":4898,"output_tokens":1126,"usd":0.02632,"stage2_stop_reason":"end_turn"},"total_usd":0.035261,"stage1_batch_id":"msgbatch_01DisAaTypwmC8QwdMBuePHo","stage2_batch_id":"msgbatch_0184zxZTqxiEfdYYfPMfkqjb","note":"batch pricing = 50% of standard"},"stage1_raw":"```json\n{\n  \"discoveries\": [\n    {\n      \"year\": 2024,\n      \"finding\": \"PF3D7_0809500 (NuA4) is identified as a subunit of the P. falciparum NuA4-like complex (PfNuA4), which contains 11 of 13 conserved NuA4 subunits; the complex was confirmed by reciprocal pulldowns using PfEAF2, a shared component between NuA4 and SWR1 complexes.\",\n      \"method\": \"Reciprocal co-immunoprecipitation / pulldown with mass spectrometry identification\",\n      \"journal\": \"mSphere\",\n      \"confidence\": \"Medium\",\n      \"confidence_rationale\": \"Tier 2 / Weak — reciprocal pulldown confirms complex membership for NuA4 (PF3D7_0809500) as a subunit, but established by a single lab with a single primary method (co-IP/pulldown); no independent replication or orthogonal structural validation of this specific subunit.\",\n      \"pmids\": [\"38564734\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    }\n  ],\n  \"current_model\": \"PF3D7_0809500 (NuA4) is established as a subunit of the P. falciparum PfNuA4 histone acetyltransferase complex, confirmed by reciprocal co-immunoprecipitation; beyond its membership in this complex, no further mechanistic details specific to PF3D7_0809500 itself have been experimentally established in the available literature.\"\n}\n```","stage2_raw":"{\n  \"mechanistic_narrative\": \"PF3D7_0809500 (NuA4) is a subunit of the Plasmodium falciparum NuA4-like histone acetyltransferase complex (PfNuA4), which contains 11 of the 13 conserved NuA4 subunits and shares the PfEAF2 component with the SWR1 complex [#0]. Its membership in this complex was established by reciprocal co-immunoprecipitation and pulldown with mass spectrometry [#0]. Beyond [#0], no further mechanistic detail specific to PF3D7_0809500 — its individual biochemical activity, structural contribution, or dedicated function within the complex — has been characterized in the available corpus.\",\n  \"teleology\": [\n    {\n      \"year\": 2024,\n      \"claim\": \"It was unknown whether P. falciparum assembles a NuA4-like histone acetyltransferase complex and which parasite proteins compose it; identifying PF3D7_0809500 as a component placed this gene within a defined chromatin-modifying machine.\",\n      \"evidence\": \"reciprocal co-immunoprecipitation/pulldown with mass spectrometry, using the shared NuA4/SWR1 component PfEAF2 as bait, in P. falciparum\",\n      \"pmids\": [\"38564734\"],\n      \"confidence\": \"Medium\",\n      \"gaps\": [\n        \"The specific molecular activity or structural role of PF3D7_0809500 within PfNuA4 is not resolved.\",\n        \"Complex membership rests on a single lab and a single primary method (co-IP/pulldown) without independent replication or orthogonal structural validation.\",\n        \"Substrate specificity, genomic targeting, and functional consequences attributable to PF3D7_0809500 itself are not addressed.\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": null,\n      \"claim\": \"What PF3D7_0809500 contributes to PfNuA4 beyond being a structural subunit — its individual biochemical function, essentiality, and role in histone acetylation-driven gene regulation — remains unestablished.\",\n      \"evidence\": \"no direct experimental evidence in the available corpus\",\n      \"pmids\": [],\n      \"confidence\": \"Medium\",\n      \"gaps\": [\n        \"No knockdown/knockout phenotype specific to PF3D7_0809500 reported.\",\n        \"No demonstration of catalytic or scaffolding function for this subunit.\",\n        \"No genome-wide occupancy or target-gene data for this subunit.\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    }\n  ],\n  \"mechanism_profile\": {\n    \"molecular_activity\": [],\n    \"localization\": [],\n    \"pathway\": [],\n    \"complexes\": [\"PfNuA4 histone acetyltransferase complex\"],\n    \"partners\": [\"PfEAF2 (shared component of NuA4 and SWR1 complexes)\"],\n    \"other_free_text\": [\n      \"PF3D7_0809500 (NuA4) is established only as a subunit of the P. falciparum NuA4-like (PfNuA4) complex by reciprocal pulldown [#0]; the corpus establishes nothing about this gene beyond its membership in the complex.\"\n    ]\n  }\n}","audit_flag":{"gene":"PF3D7_0809500","tier":"IDENTITY_CHECK","verdict":"identity unverified","subtype":"names_other_cards","uniprot_band":"","rules_fired":"R12","issue":"No cited paper names this card; 1 of 1 cited papers name other catalogue genes (PF3D7_0320900, PF3D7_0617800, PF3D7_0714000). The summary may describe one of those genes."},"strains":[{"strain":"Pf3D7","gene_id":"PF3D7_0809500","name":null,"product":"histone acetyltransferase subunit NuA4, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PbANKA","gene_id":"PBANKA_1427900","name":null,"product":"histone acetyltransferase subunit NuA4, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PkH","gene_id":"PKNH_1431200","name":null,"product":"histone acetyltransferase subunit NuA4, putative","uniprot_acc":null,"chromosome":null,"start_pos":null}],"gene_symbol":"","evaluation":null}