{"gene":"PF3D7_0602100","run_date":"2026-09-08T19:44:17","timeline":{"discoveries":[{"year":2022,"finding":"PF3D7_0602100 (MTR4) was identified as a protein that interacts with PfMDR1 (PF3D7_0523000) based on Plasmodium interactome data, placing MTR4 within the MDR1 interaction network.","method":"Protein-protein interaction network analysis using Plasmodium interactome data (Hillier et al., 2019)","journal":"Current research in microbial sciences","confidence":"Low","confidence_rationale":"Tier 3 / Weak — single computational interactome dataset, no direct biochemical validation of the MTR4–MDR1 interaction reported in this paper","pmids":["36582189"],"is_preprint":false,"attribution":[{"species":"Plasmodium falciparum","strain":""}]}],"current_model":"PF3D7_0602100 (MTR4) is a putative ATP-dependent RNA helicase in P. falciparum annotated as an RBP with homology to yeast Mtr4p (a TRAMP-complex DExH-box helicase involved in nuclear RNA quality control), and has been placed in the MDR1 protein interaction network by interactome data, but no direct biochemical or functional characterization of PF3D7_0602100 itself has been reported in the available literature."},"narrative":{"mechanistic_narrative":"PF3D7_0602100 (MTR4) is annotated as a putative ATP-dependent RNA helicase in Plasmodium falciparum, but the available corpus contains no direct biochemical or functional characterization of the protein itself. The only gene-specific evidence places MTR4 within the PfMDR1 (PF3D7_0523000) interaction network based on Plasmodium interactome data [PMID:36582189]. Beyond this network association [PMID:36582189], no enzymatic activity, RNA substrate, complex membership, localization, or phenotype has been characterized for PF3D7_0602100 in the available corpus.","teleology":[{"year":2022,"claim":"To begin placing the uncharacterized helicase PF3D7_0602100 in a cellular context, it was asked whether the protein participates in any known interaction network, and interactome analysis linked it to PfMDR1.","evidence":"protein-protein interaction network analysis using Plasmodium interactome data in P. falciparum","pmids":["36582189"],"confidence":"Low","gaps":["Single computational interactome dataset with no direct biochemical validation of the MTR4-MDR1 interaction","No demonstration that PF3D7_0602100 has ATP-dependent RNA helicase activity","No RNA substrate, complex membership, or cellular localization established for the protein itself"],"attribution":[{"species":"Plasmodium falciparum","strain":""}]},{"year":null,"claim":"Whether PF3D7_0602100 possesses ATP-dependent RNA helicase activity, acts in nuclear RNA quality control, and functionally interacts with PfMDR1 remains entirely unestablished by direct experiment.","evidence":"no direct biochemical or functional study of PF3D7_0602100 in the available corpus","pmids":[],"confidence":"Low","gaps":["No biochemical assay of helicase or ATPase activity","No identification of RNA substrates or partner complexes","No knockout, knockdown, or localization data for the protein"],"attribution":[{"species":"Plasmodium falciparum","strain":""}]}],"mechanism_profile":{"molecular_activity":[],"localization":[],"pathway":[],"complexes":[],"partners":["PFMDR1 (PF3D7_0523000)"],"other_free_text":["PF3D7_0602100 (MTR4) is placed in the PfMDR1 interaction network by Plasmodium interactome data, but no direct biochemical or functional characterization of the protein itself has been reported [#0]."]}},"prefetch_data":{},"corpus_meta":[{"pmid":"26525978","id":"PMC_26525978","title":"A bioinformatic survey of RNA-binding proteins in Plasmodium.","date":"2015","source":"BMC genomics","url":"https://pubmed.ncbi.nlm.nih.gov/26525978","citation_count":62,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["RNA"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"4971014","id":"PMC_4971014","title":"DNA, RNA , and protein synthesis in erythrocytic forms of Plasmodium knowlesi.","date":"1968","source":"The American journal of tropical medicine and hygiene","url":"https://pubmed.ncbi.nlm.nih.gov/4971014","citation_count":56,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["RNA"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"36582189","id":"","title":"Combining IP3 affinity chromatography and bioinformatics reveals a novel protein-IP3 binding site on Plasmodium falciparum MDR1 transporter.","date":"2022","source":"Current research in microbial sciences","url":"https://pubmed.ncbi.nlm.nih.gov/36582189","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["MTR4"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"26537038","id":"","title":"DEAD/DExH-Box RNA Helicases in Selected Human Parasites.","date":"2015","source":"The Korean journal of parasitology","url":"https://pubmed.ncbi.nlm.nih.gov/26537038","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["MTR4"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false}],"cost":{"stage1":{"model":"claude-sonnet-4-6","input_tokens":5520,"output_tokens":388,"usd":0.01119,"stage1_stop_reason":"end_turn"},"stage2":{"model":"claude-opus-4-8","input_tokens":4860,"output_tokens":990,"usd":0.024525,"stage2_stop_reason":"end_turn"},"total_usd":0.035715,"stage1_batch_id":"msgbatch_01SRp5hyRc82zNjddxyCCXGk","stage2_batch_id":"msgbatch_01K3BTmBazRo3pRrMvyaPMTY","note":"batch pricing = 50% of standard"},"stage1_raw":"```json\n{\n  \"discoveries\": [\n    {\n      \"year\": 2022,\n      \"finding\": \"PF3D7_0602100 (MTR4) was identified as a protein that interacts with PfMDR1 (PF3D7_0523000) based on Plasmodium interactome data, placing MTR4 within the MDR1 interaction network.\",\n      \"method\": \"Protein-protein interaction network analysis using Plasmodium interactome data (Hillier et al., 2019)\",\n      \"journal\": \"Current research in microbial sciences\",\n      \"confidence\": \"Low\",\n      \"confidence_rationale\": \"Tier 3 / Weak — single computational interactome dataset, no direct biochemical validation of the MTR4–MDR1 interaction reported in this paper\",\n      \"pmids\": [\"36582189\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    }\n  ],\n  \"current_model\": \"PF3D7_0602100 (MTR4) is a putative ATP-dependent RNA helicase in P. falciparum annotated as an RBP with homology to yeast Mtr4p (a TRAMP-complex DExH-box helicase involved in nuclear RNA quality control), and has been placed in the MDR1 protein interaction network by interactome data, but no direct biochemical or functional characterization of PF3D7_0602100 itself has been reported in the available literature.\"\n}\n```","stage2_raw":"{\n  \"mechanistic_narrative\": \"PF3D7_0602100 (MTR4) is annotated as a putative ATP-dependent RNA helicase in Plasmodium falciparum, but the available corpus contains no direct biochemical or functional characterization of the protein itself. The only gene-specific evidence places MTR4 within the PfMDR1 (PF3D7_0523000) interaction network based on Plasmodium interactome data [#0]. Beyond this network association [#0], no enzymatic activity, RNA substrate, complex membership, localization, or phenotype has been characterized for PF3D7_0602100 in the available corpus.\",\n  \"teleology\": [\n    {\n      \"year\": 2022,\n      \"claim\": \"To begin placing the uncharacterized helicase PF3D7_0602100 in a cellular context, it was asked whether the protein participates in any known interaction network, and interactome analysis linked it to PfMDR1.\",\n      \"evidence\": \"protein-protein interaction network analysis using Plasmodium interactome data in P. falciparum\",\n      \"pmids\": [\"36582189\"],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"Single computational interactome dataset with no direct biochemical validation of the MTR4-MDR1 interaction\",\n        \"No demonstration that PF3D7_0602100 has ATP-dependent RNA helicase activity\",\n        \"No RNA substrate, complex membership, or cellular localization established for the protein itself\"\n      ],\n      \"attribution\": [\n        {\n          \"species\": \"Plasmodium falciparum\",\n          \"strain\": \"\"\n        }\n      ]\n    },\n    {\n      \"year\": null,\n      \"claim\": \"Whether PF3D7_0602100 possesses ATP-dependent RNA helicase activity, acts in nuclear RNA quality control, and functionally interacts with PfMDR1 remains entirely unestablished by direct experiment.\",\n      \"evidence\": \"no direct biochemical or functional study of PF3D7_0602100 in the available corpus\",\n      \"pmids\": [],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"No biochemical assay of helicase or ATPase activity\",\n        \"No identification of RNA substrates or partner complexes\",\n        \"No knockout, knockdown, or localization data for the protein\"\n      ],\n      \"attribution\": [\n        {\n          \"species\": \"Plasmodium falciparum\",\n          \"strain\": \"\"\n        }\n      ]\n    }\n  ],\n  \"mechanism_profile\": {\n    \"molecular_activity\": [],\n    \"localization\": [],\n    \"pathway\": [],\n    \"complexes\": [],\n    \"partners\": [\"PfMDR1 (PF3D7_0523000)\"],\n    \"other_free_text\": [\n      \"PF3D7_0602100 (MTR4) is placed in the PfMDR1 interaction network by Plasmodium interactome data, but no direct biochemical or functional characterization of the protein itself has been reported [#0].\"\n    ]\n  }\n}","audit_flag":null,"strains":[{"strain":"Pf3D7","gene_id":"PF3D7_0602100","name":null,"product":"ATP-dependent RNA helicase MTR4","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PbANKA","gene_id":"PBANKA_0100900","name":null,"product":"ATP-dependent RNA helicase MTR4, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PkH","gene_id":"PKNH_1148600","name":null,"product":"ATP-dependent RNA helicase MTR4, putative","uniprot_acc":null,"chromosome":null,"start_pos":null}],"gene_symbol":"MTR4","evaluation":null}