{"gene":"PF3D7_0522200","run_date":"2026-09-08T16:26:55","timeline":{"discoveries":[{"year":2005,"finding":"PF3D7_0522200 (TAF10) was predicted as a putative ortholog of TFIID subunit TAF10 in P. falciparum using hydrophobic cluster analysis (HCA) and PSI-BLAST profile-based methods. Notably, no candidates for TAFs with classical histone fold domains (HFDs) were found in P. falciparum, suggesting an unusual architecture of the TFIID complex in the parasite.","method":"Computational sequence analysis (HCA and PSI-BLAST)","journal":"BMC genomics","confidence":"Low","confidence_rationale":"Tier 4 / Weak — computational prediction only, no experimental validation performed for this gene","pmids":["16042788"],"is_preprint":false,"attribution":[{"species":"Plasmodium falciparum","strain":""}]},{"year":2019,"finding":"PF3D7_0522200 (TAF10) was identified as a co-purifying interactor of BDP5/TAF1 by interaction proteomics (IP-MS/MS), placing TAF10 within a putative TAF complex in P. falciparum. This complex also contains TAF2 and a WD-repeat protein homologous to hTAF5 (PF3D7_1138800), along with five apicomplexan-specific proteins. Importantly, no interaction of this TAF complex with either TBP homologue was detected, suggesting this is not a canonical TFIID complex but an alternative transcription initiation module.","method":"Immunoprecipitation followed by quantitative mass spectrometry (IP-MS/MS)","journal":"Nucleic acids research","confidence":"Medium","confidence_rationale":"Tier 3 / Moderate — single Co-IP/MS experiment, single lab, but supported by prior computational prediction and negative result (no TBP interaction) adds mechanistic clarity","pmids":["31728527"],"is_preprint":false,"attribution":[{"species":"Plasmodium falciparum","strain":""}]}],"current_model":"PF3D7_0522200 (TAF10) is a predicted TFIID subunit in P. falciparum that, based on interaction proteomics, participates in a non-canonical TAF complex together with BDP5/TAF1, TAF2, a hTAF5 homolog, and several apicomplexan-specific proteins, but does not detectably associate with either P. falciparum TBP homologue, suggesting it functions in an alternative transcription initiation module rather than a classical TFIID complex."},"narrative":{"mechanistic_narrative":"PF3D7_0522200 (TAF10) is a predicted TFIID-associated subunit of Plasmodium falciparum that participates in an atypical transcription initiation module rather than a classical TFIID complex [PMID:16042788, PMID:31728527]. It was originally identified computationally as a putative ortholog of TFIID subunit TAF10, in an analysis that found no P. falciparum TAFs bearing classical histone-fold domains, indicating an unusual architecture for the parasite TFIID [PMID:16042788]. Interaction proteomics subsequently placed TAF10 within a co-purifying TAF complex that includes BDP5/TAF1, TAF2, and a WD-repeat hTAF5 homolog (PF3D7_1138800) together with five apicomplexan-specific proteins; notably, this complex does not detectably associate with either P. falciparum TBP homolog, arguing that TAF10 acts in an alternative, non-canonical initiation module [PMID:31728527]. Beyond its membership in this complex, no direct molecular activity, structural detail, or transcriptional function has been characterized for TAF10 itself in the available corpus.","teleology":[{"year":2005,"claim":"Establishing whether P. falciparum encodes recognizable TFIID subunits addressed whether the parasite possesses conventional basal transcription machinery; the analysis identified TAF10 as a candidate while revealing that classical histone-fold TAFs are absent.","evidence":"Computational sequence analysis (HCA and PSI-BLAST profile methods) in P. falciparum","pmids":["16042788"],"confidence":"Low","gaps":["Prediction only — no experimental validation that PF3D7_0522200 functions as a TAF10 ortholog","Does not establish complex membership, localization, or transcriptional activity","Unusual TFIID architecture inferred from absence of histone-fold TAFs, not directly demonstrated"],"attribution":[{"species":"Plasmodium falciparum","strain":""}]},{"year":2019,"claim":"Whether the predicted TAF10 physically assembles into a TFIID-like complex was unknown; interaction proteomics showed it co-purifies with BDP5/TAF1, TAF2, an hTAF5 homolog, and apicomplexan-specific proteins but not with either TBP homolog, establishing TAF10 as part of a non-canonical initiation module rather than a classical TFIID.","evidence":"Immunoprecipitation followed by quantitative mass spectrometry (IP-MS/MS) in P. falciparum","pmids":["31728527"],"confidence":"Medium","gaps":["Single Co-IP/MS experiment from one lab without reciprocal pull-down anchored on TAF10 itself","Direct role of TAF10 within the complex (structural, stabilizing, or regulatory) not defined","Functional consequence of the absent TBP interaction for transcription initiation not tested"],"attribution":[{"species":"Plasmodium falciparum","strain":""}]},{"year":null,"claim":"The intrinsic molecular activity of TAF10, its requirement for parasite viability, and the genes or promoters regulated by its non-canonical TAF complex remain undefined.","evidence":"No further direct experimental characterization of PF3D7_0522200 in the available corpus","pmids":[],"confidence":"Low","gaps":["No loss-of-function or essentiality data for TAF10 specifically","No structural model of the parasite TAF complex or of TAF10 within it","No identification of target promoters or transcriptional output of the module"],"attribution":[{"species":"Plasmodium falciparum","strain":""}]}],"mechanism_profile":{"molecular_activity":[],"localization":[],"pathway":[],"complexes":["Non-canonical P. falciparum TAF complex (BDP5/TAF1, TAF2, hTAF5 homolog PF3D7_1138800, five apicomplexan-specific proteins; no TBP association) [#1]"],"partners":["BDP5/TAF1 [#1]","TAF2 [#1]","HTAF5 HOMOLOG PF3D7_1138800 [#1]"],"other_free_text":["Predicted TAF10 ortholog with no classical histone-fold domain, consistent with an unusual parasite TFIID architecture [#0]","Does not detectably associate with either P. falciparum TBP homolog, indicating an alternative rather than canonical TFIID module [#1]"]}},"prefetch_data":{},"corpus_meta":[{"pmid":"16042788","id":"PMC_16042788","title":"Prediction of the general transcription factors associated with RNA polymerase II in Plasmodium falciparum: conserved features and differences relative to other eukaryotes.","date":"2005","source":"BMC genomics","url":"https://pubmed.ncbi.nlm.nih.gov/16042788","citation_count":101,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["TAF10","TFIID"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"42115185","id":"","title":"Global-scale population genetic analysis of Plasmodium falciparum identifies region-specific patterns of malaria parasite adaptation.","date":"2026","source":"Nature communications","url":"https://pubmed.ncbi.nlm.nih.gov/42115185","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["TAF10"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"31728527","id":"","title":"Epigenetic reader complexes of the human malaria parasite, Plasmodium falciparum.","date":"2019","source":"Nucleic acids research","url":"https://pubmed.ncbi.nlm.nih.gov/31728527","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["TAF10"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"18828674","id":"","title":"Regulatory hotspots in the malaria parasite genome dictate transcriptional variation.","date":"2008","source":"PLoS biology","url":"https://pubmed.ncbi.nlm.nih.gov/18828674","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["TAF10"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"20132544","id":"","title":"Origin of the cell nucleus, mitosis and sex: roles of intracellular coevolution.","date":"2010","source":"Biology direct","url":"https://pubmed.ncbi.nlm.nih.gov/20132544","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["TAF10"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false}],"cost":{"stage1":{"model":"claude-sonnet-4-6","input_tokens":7867,"output_tokens":717,"usd":0.017178,"stage1_stop_reason":"end_turn"},"stage2":{"model":"claude-opus-4-8","input_tokens":5345,"output_tokens":1825,"usd":0.036175,"stage2_stop_reason":"end_turn"},"total_usd":0.053353,"stage1_batch_id":"msgbatch_01NE1MTa8x1hW7Lo4tAaNzY1","stage2_batch_id":"msgbatch_0141vaQdeFvbo2q39AinvXM9","note":"batch pricing = 50% of standard"},"stage1_raw":"```json\n{\n  \"discoveries\": [\n    {\n      \"year\": 2005,\n      \"finding\": \"PF3D7_0522200 (TAF10) was predicted as a putative ortholog of TFIID subunit TAF10 in P. falciparum using hydrophobic cluster analysis (HCA) and PSI-BLAST profile-based methods. Notably, no candidates for TAFs with classical histone fold domains (HFDs) were found in P. falciparum, suggesting an unusual architecture of the TFIID complex in the parasite.\",\n      \"method\": \"Computational sequence analysis (HCA and PSI-BLAST)\",\n      \"journal\": \"BMC genomics\",\n      \"confidence\": \"Low\",\n      \"confidence_rationale\": \"Tier 4 / Weak — computational prediction only, no experimental validation performed for this gene\",\n      \"pmids\": [\"16042788\"],\n      \"is_preprint\": false,\n      \"attribution\": [{\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}]\n    },\n    {\n      \"year\": 2019,\n      \"finding\": \"PF3D7_0522200 (TAF10) was identified as a co-purifying interactor of BDP5/TAF1 by interaction proteomics (IP-MS/MS), placing TAF10 within a putative TAF complex in P. falciparum. This complex also contains TAF2 and a WD-repeat protein homologous to hTAF5 (PF3D7_1138800), along with five apicomplexan-specific proteins. Importantly, no interaction of this TAF complex with either TBP homologue was detected, suggesting this is not a canonical TFIID complex but an alternative transcription initiation module.\",\n      \"method\": \"Immunoprecipitation followed by quantitative mass spectrometry (IP-MS/MS)\",\n      \"journal\": \"Nucleic acids research\",\n      \"confidence\": \"Medium\",\n      \"confidence_rationale\": \"Tier 3 / Moderate — single Co-IP/MS experiment, single lab, but supported by prior computational prediction and negative result (no TBP interaction) adds mechanistic clarity\",\n      \"pmids\": [\"31728527\"],\n      \"is_preprint\": false,\n      \"attribution\": [{\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}]\n    }\n  ],\n  \"current_model\": \"PF3D7_0522200 (TAF10) is a predicted TFIID subunit in P. falciparum that, based on interaction proteomics, participates in a non-canonical TAF complex together with BDP5/TAF1, TAF2, a hTAF5 homolog, and several apicomplexan-specific proteins, but does not detectably associate with either P. falciparum TBP homologue, suggesting it functions in an alternative transcription initiation module rather than a classical TFIID complex.\"\n}\n```","stage2_raw":"{\n  \"mechanistic_narrative\": \"PF3D7_0522200 (TAF10) is a predicted TFIID-associated subunit of Plasmodium falciparum that participates in an atypical transcription initiation module rather than a classical TFIID complex [#0, #1]. It was originally identified computationally as a putative ortholog of TFIID subunit TAF10, in an analysis that found no P. falciparum TAFs bearing classical histone-fold domains, indicating an unusual architecture for the parasite TFIID [#0]. Interaction proteomics subsequently placed TAF10 within a co-purifying TAF complex that includes BDP5/TAF1, TAF2, and a WD-repeat hTAF5 homolog (PF3D7_1138800) together with five apicomplexan-specific proteins; notably, this complex does not detectably associate with either P. falciparum TBP homolog, arguing that TAF10 acts in an alternative, non-canonical initiation module [#1]. Beyond its membership in this complex, no direct molecular activity, structural detail, or transcriptional function has been characterized for TAF10 itself in the available corpus.\",\n  \"teleology\": [\n    {\n      \"year\": 2005,\n      \"claim\": \"Establishing whether P. falciparum encodes recognizable TFIID subunits addressed whether the parasite possesses conventional basal transcription machinery; the analysis identified TAF10 as a candidate while revealing that classical histone-fold TAFs are absent.\",\n      \"evidence\": \"Computational sequence analysis (HCA and PSI-BLAST profile methods) in P. falciparum\",\n      \"pmids\": [\n        \"16042788\"\n      ],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"Prediction only \\u2014 no experimental validation that PF3D7_0522200 functions as a TAF10 ortholog\",\n        \"Does not establish complex membership, localization, or transcriptional activity\",\n        \"Unusual TFIID architecture inferred from absence of histone-fold TAFs, not directly demonstrated\"\n      ],\n      \"attribution\": [\n        {\n          \"species\": \"Plasmodium falciparum\",\n          \"strain\": \"\"\n        }\n      ]\n    },\n    {\n      \"year\": 2019,\n      \"claim\": \"Whether the predicted TAF10 physically assembles into a TFIID-like complex was unknown; interaction proteomics showed it co-purifies with BDP5/TAF1, TAF2, an hTAF5 homolog, and apicomplexan-specific proteins but not with either TBP homolog, establishing TAF10 as part of a non-canonical initiation module rather than a classical TFIID.\",\n      \"evidence\": \"Immunoprecipitation followed by quantitative mass spectrometry (IP-MS/MS) in P. falciparum\",\n      \"pmids\": [\n        \"31728527\"\n      ],\n      \"confidence\": \"Medium\",\n      \"gaps\": [\n        \"Single Co-IP/MS experiment from one lab without reciprocal pull-down anchored on TAF10 itself\",\n        \"Direct role of TAF10 within the complex (structural, stabilizing, or regulatory) not defined\",\n        \"Functional consequence of the absent TBP interaction for transcription initiation not tested\"\n      ],\n      \"attribution\": [\n        {\n          \"species\": \"Plasmodium falciparum\",\n          \"strain\": \"\"\n        }\n      ]\n    },\n    {\n      \"year\": null,\n      \"claim\": \"The intrinsic molecular activity of TAF10, its requirement for parasite viability, and the genes or promoters regulated by its non-canonical TAF complex remain undefined.\",\n      \"evidence\": \"No further direct experimental characterization of PF3D7_0522200 in the available corpus\",\n      \"pmids\": [],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"No loss-of-function or essentiality data for TAF10 specifically\",\n        \"No structural model of the parasite TAF complex or of TAF10 within it\",\n        \"No identification of target promoters or transcriptional output of the module\"\n      ],\n      \"attribution\": [\n        {\n          \"species\": \"Plasmodium falciparum\",\n          \"strain\": \"\"\n        }\n      ]\n    }\n  ],\n  \"mechanism_profile\": {\n    \"molecular_activity\": [\n      {\n        \"term_id\": \"GO:0016251\",\n        \"supporting_discovery_ids\": [\n          0,\n          1\n        ]\n      }\n    ],\n    \"localization\": [],\n    \"pathway\": [\n      {\n        \"term_id\": \"GO:0006352\",\n        \"supporting_discovery_ids\": [\n          0,\n          1\n        ]\n      }\n    ],\n    \"complexes\": [\n      \"Non-canonical P. falciparum TAF complex (BDP5/TAF1, TAF2, hTAF5 homolog PF3D7_1138800, five apicomplexan-specific proteins; no TBP association) [#1]\"\n    ],\n    \"partners\": [\n      \"BDP5/TAF1 [#1]\",\n      \"TAF2 [#1]\",\n      \"hTAF5 homolog PF3D7_1138800 [#1]\"\n    ],\n    \"other_free_text\": [\n      \"Predicted TAF10 ortholog with no classical histone-fold domain, consistent with an unusual parasite TFIID architecture [#0]\",\n      \"Does not detectably associate with either P. falciparum TBP homolog, indicating an alternative rather than canonical TFIID module [#1]\"\n    ]\n  }\n}","audit_flag":null,"strains":[{"strain":"Pf3D7","gene_id":"PF3D7_0522200","name":null,"product":"transcription initiation factor TFIID subunit 10, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PbANKA","gene_id":"PBANKA_1236900","name":null,"product":"transcription initiation factor TFIID subunit 10, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PkH","gene_id":"PKNH_1010700","name":null,"product":"transcription initiation factor TFIID subunit 10, putative","uniprot_acc":null,"chromosome":null,"start_pos":null}],"gene_symbol":"TAF10","evaluation":null}