{"gene":"TG_201880","gene_symbol":"QCR9","run_date":"2026-09-10T21:09:19","timeline":{"discoveries":[{"year":2021,"finding":"Mass spectrometry-based proteomic analysis of the coenzyme Q:cytochrome c oxidoreductase complex (Complex III) in Toxoplasma gondii identified QCR9 as a component of this complex, which also contains canonical subunits conserved across eukaryotic evolution as well as novel/highly divergent apicomplexan-specific subunits.","method":"Mass spectrometry-based proteomics of purified Complex III","journal":"PLoS pathogens","confidence":"Medium","confidence_rationale":"Tier 2 / Weak — single lab, MS-based proteomic identification of complex membership, no direct functional validation specific to QCR9","pmids":["33524071"],"is_preprint":false,"attribution":[{"species":"Toxoplasma gondii","strain":""}]}],"current_model":"QCR9 (TG_201880) is a component of the Toxoplasma gondii mitochondrial coenzyme Q:cytochrome c oxidoreductase complex (Complex III), identified by mass spectrometry-based proteomics; no further mechanistic details specific to QCR9's function within this complex have been established."},"narrative":{"mechanistic_narrative":"QCR9 is a component of the mitochondrial coenzyme Q:cytochrome c oxidoreductase complex (Complex III) in Toxoplasma gondii, identified by mass spectrometry-based proteomics of the purified complex, which comprises both canonical subunits conserved across eukaryotes and divergent apicomplexan-specific subunits [PMID:33524071]. Beyond this assignment as a Complex III subunit, no further mechanistic detail about QCR9's specific function has been characterized in the available corpus.","teleology":[{"year":2021,"claim":"Whether QCR9 associates with the respiratory Complex III in an apicomplexan parasite was unknown; proteomic dissection of the purified complex established QCR9 as a bona fide subunit alongside conserved and lineage-specific components.","evidence":"Mass spectrometry-based proteomics of purified Complex III in Toxoplasma gondii","pmids":["33524071"],"confidence":"Medium","gaps":["No direct functional validation of QCR9's role within Complex III","Position and interaction partners of QCR9 within the complex not resolved","Contribution of QCR9 to complex assembly, stability, or electron transfer not tested"],"attribution":[{"species":"Toxoplasma gondii","strain":""}]}],"mechanism_profile":{"molecular_activity":[],"localization":[],"pathway":[],"complexes":["Coenzyme Q:cytochrome c oxidoreductase (Complex III)"],"partners":[],"other_free_text":["Identified as a Complex III component by mass spectrometry-based proteomics; the complex contains both conserved eukaryotic subunits and apicomplexan-specific subunits [#0]."]},"strain_conflicts":[]},"prefetch_data":{},"corpus_meta":[{"pmid":"33524071","id":"PMC_33524071","title":"Divergent features of the coenzyme Q:cytochrome c oxidoreductase complex in Toxoplasma gondii parasites.","date":"2021","source":"PLoS pathogens","url":"https://pubmed.ncbi.nlm.nih.gov/33524071","citation_count":28,"is_preprint":false}],"cost":{"stage1":{"model":"claude-sonnet-4-6","input_tokens":2824,"output_tokens":380,"usd":0.007086,"stage1_stop_reason":"end_turn"},"stage2":{"model":"claude-opus-4-8","input_tokens":4983,"output_tokens":992,"usd":0.024858,"stage2_stop_reason":"end_turn"},"total_usd":0.064822,"stage1_batch_id":"msgbatch_018xTxyBPcQFK9jdgubtxgsj","stage2_batch_id":"msgbatch_01UiG5BTaJP7BvKKL6RLeyv2","note":"batch pricing = 50% of standard","corrective_rerun":"2026-09-10 wrong-gene rerun (round-4 rules)","corrective_reason":"re-read with subject anchor"},"stage1_raw":"```json\n{\n  \"discoveries\": [\n    {\n      \"year\": 2021,\n      \"finding\": \"Mass spectrometry-based proteomic analysis of the coenzyme Q:cytochrome c oxidoreductase complex (Complex III) in Toxoplasma gondii identified QCR9 as a component of this complex, which also contains canonical subunits conserved across eukaryotic evolution as well as novel/highly divergent apicomplexan-specific subunits.\",\n      \"method\": \"Mass spectrometry-based proteomics of purified Complex III\",\n      \"journal\": \"PLoS pathogens\",\n      \"confidence\": \"Medium\",\n      \"confidence_rationale\": \"Tier 2 / Weak — single lab, MS-based proteomic identification of complex membership, no direct functional validation specific to QCR9\",\n      \"pmids\": [\"33524071\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Toxoplasma gondii\", \"strain\": \"\"}\n      ]\n    }\n  ],\n  \"current_model\": \"QCR9 (TG_201880) is a component of the Toxoplasma gondii mitochondrial coenzyme Q:cytochrome c oxidoreductase complex (Complex III), identified by mass spectrometry-based proteomics; no further mechanistic details specific to QCR9's function within this complex have been established.\"\n}\n```","stage2_raw":"{\n  \"mechanistic_narrative\": \"QCR9 is a component of the mitochondrial coenzyme Q:cytochrome c oxidoreductase complex (Complex III) in Toxoplasma gondii, identified by mass spectrometry-based proteomics of the purified complex, which comprises both canonical subunits conserved across eukaryotes and divergent apicomplexan-specific subunits [#0]. Beyond this assignment as a Complex III subunit, no further mechanistic detail about QCR9's specific function has been characterized in the available corpus.\",\n  \"teleology\": [\n    {\n      \"year\": 2021,\n      \"claim\": \"Whether QCR9 associates with the respiratory Complex III in an apicomplexan parasite was unknown; proteomic dissection of the purified complex established QCR9 as a bona fide subunit alongside conserved and lineage-specific components.\",\n      \"evidence\": \"Mass spectrometry-based proteomics of purified Complex III in Toxoplasma gondii\",\n      \"pmids\": [\"33524071\"],\n      \"confidence\": \"Medium\",\n      \"gaps\": [\n        \"No direct functional validation of QCR9's role within Complex III\",\n        \"Position and interaction partners of QCR9 within the complex not resolved\",\n        \"Contribution of QCR9 to complex assembly, stability, or electron transfer not tested\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Toxoplasma gondii\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": null,\n      \"claim\": \"The specific molecular function of QCR9 within Complex III, its structural placement, and its requirement for complex activity remain undefined.\",\n      \"evidence\": \"\",\n      \"pmids\": [],\n      \"confidence\": \"Medium\",\n      \"gaps\": [\n        \"No structural model placing QCR9 in the complex\",\n        \"No genetic knockout or knockdown phenotype for QCR9\",\n        \"No defined biochemical activity attributable to QCR9\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Toxoplasma gondii\", \"strain\": \"\"}\n      ]\n    }\n  ],\n  \"mechanism_profile\": {\n    \"molecular_activity\": [],\n    \"localization\": [],\n    \"pathway\": [\n      {\"term_id\": \"GO:0006122\", \"supporting_discovery_ids\": [0], \"attribution\": [{\"species\": \"Toxoplasma gondii\", \"strain\": \"\"}]}\n    ],\n    \"complexes\": [\"Coenzyme Q:cytochrome c oxidoreductase (Complex III)\"],\n    \"partners\": [],\n    \"other_free_text\": [\n      \"Identified as a Complex III component by mass spectrometry-based proteomics; the complex contains both conserved eukaryotic subunits and apicomplexan-specific subunits [#0].\"\n    ]\n  },\n  \"strain_conflicts\": []\n}","audit_flag":null,"strains":[{"strain":"ME49","gene_id":"TGME49_201880","name":"QCR9","product":"cytochrome b-c1 complex subunit 9","uniprot_acc":"A0A125YZ21","chromosome":"TGME49_chrVIIa","start_pos":3728742},{"strain":"GT1","gene_id":"TGGT1_201880","name":null,"product":"hypothetical protein","uniprot_acc":null,"chromosome":"TGGT1_chrVIIa","start_pos":3628377},{"strain":"RH88","gene_id":"TGRH88_037060","name":null,"product":"unspecified product","uniprot_acc":null,"chromosome":"CM023088","start_pos":3822798},{"strain":"VEG","gene_id":"TGVEG_201880","name":null,"product":"ubiquinol-cytochrome C family reductase UQCRX/QCR9-like protein","uniprot_acc":"A0A125YZ24","chromosome":"TGVEG_chrVIIa","start_pos":3816120}]}