{"gene":"TG_204340","gene_symbol":"GRA54","run_date":"2026-09-08T11:06:14","timeline":{"discoveries":[{"year":2020,"finding":"GRA54 (TGGT1_204340) was identified as a MYR1-interacting protein via affinity purification of MYR1, and localizes to the parasitophorous vacuole (PV). However, GRA54 was not among the proteins shown to be essential for GRA16 translocation or host c-Myc/cyclin E1 upregulation in this study (unlike GRA44, GRA45, and MYR4).","method":"Affinity purification / co-immunoprecipitation of MYR1 followed by mass spectrometry; localization by imaging","journal":"mSphere","confidence":"Medium","confidence_rationale":"Tier 3 / Moderate — co-IP/affinity purification with MS identification; PV localization established, but functional requirement for translocation not tested for GRA54 specifically","pmids":["32075880"],"is_preprint":false,"attribution":[{"species":"Toxoplasma gondii","strain":""}]}],"current_model":"GRA54 is a dense granule protein that localizes to the Toxoplasma gondii parasitophorous vacuole and physically associates with the effector-translocation complex component MYR1, though its specific functional role in effector translocation into host cells has not yet been experimentally established."},"narrative":{"mechanistic_narrative":"GRA54 is a dense granule protein of Toxoplasma gondii that localizes to the parasitophorous vacuole and physically associates with the effector-translocation component MYR1 [PMID:32075880]. Beyond this interaction and localization, GRA54 has no established functional role: it was not required for GRA16 translocation or host c-Myc/cyclin E1 upregulation in the study that identified it, and no further mechanistic detail has been characterized in the available corpus [PMID:32075880].","teleology":[{"year":2020,"claim":"To map the machinery driving effector export across the parasitophorous vacuole membrane, the MYR1 interactome was defined, placing GRA54 within the MYR1-associated protein network at the PV.","evidence":"Affinity purification/co-immunoprecipitation of MYR1 with mass spectrometry identification and imaging-based localization in Toxoplasma gondii","pmids":["32075880"],"confidence":"Medium","gaps":["GRA54 was not tested as required for GRA16 translocation or host c-Myc/cyclin E1 upregulation, unlike GRA44, GRA45, and MYR4","the MYR1 interaction was detected by affinity purification without reciprocal or direct binding validation","no molecular activity, substrate, or specific role in translocation established"],"attribution":[{"species":"Toxoplasma gondii","strain":""}]},{"year":null,"claim":"Whether GRA54 contributes functionally to MYR1-dependent effector translocation, and by what mechanism, remains unresolved.","evidence":"","pmids":[],"confidence":"Medium","gaps":["no functional or genetic test of GRA54 requirement for effector export","no defined molecular activity","no structural or interaction interface data"],"attribution":[{"species":"Toxoplasma gondii","strain":""}]}],"mechanism_profile":{"molecular_activity":[],"localization":[],"pathway":[],"complexes":[],"partners":["MYR1"],"other_free_text":["GRA54 (TGGT1_204340) is a dense granule protein identified as a MYR1-interacting protein by affinity purification/MS [#0].","GRA54 was not among the proteins shown to be essential for GRA16 translocation or host c-Myc/cyclin E1 upregulation, unlike GRA44, GRA45, and MYR4 [#0]."]},"strain_conflicts":[]},"prefetch_data":{},"corpus_meta":[{"pmid":"32075880","id":"PMC_32075880","title":"Coimmunoprecipitation with MYR1 Identifies Three Additional Proteins within the Toxoplasma gondii Parasitophorous Vacuole Required for Translocation of Dense Granule Effectors into Host Cells.","date":"2020","source":"mSphere","url":"https://pubmed.ncbi.nlm.nih.gov/32075880","citation_count":53,"is_preprint":false},{"pmid":"41296383","id":"PMC_41296383","title":"Development and Evaluation of Six Novel Recombinant GRA Proteins in Serodiagnosis of Human Toxoplasmosis.","date":"2025","source":"Current issues in molecular biology","url":"https://pubmed.ncbi.nlm.nih.gov/41296383","citation_count":2,"is_preprint":false},{"pmid":"37670006","id":"PMC_37670006","title":"Identification of specific antigens between Toxoplasma gondii and Neospora caninum and application of potential diagnostic antigen TgGRA54.","date":"2023","source":"Parasitology research","url":"https://pubmed.ncbi.nlm.nih.gov/37670006","citation_count":1,"is_preprint":false}],"cost":{"stage1":{"model":"claude-sonnet-4-6","input_tokens":4047,"output_tokens":382,"usd":0.008936,"stage1_stop_reason":"end_turn"},"stage2":{"model":"claude-opus-4-8","input_tokens":4945,"output_tokens":1051,"usd":0.0255,"stage2_stop_reason":"end_turn"},"total_usd":0.034436,"stage1_batch_id":"msgbatch_01WokvBYTB6JLnYrpD4rXnyV","stage2_batch_id":"msgbatch_01M7hsQDvz6AqVC9DLVjQzzc","note":"batch pricing = 50% of standard"},"stage1_raw":"```json\n{\n  \"discoveries\": [\n    {\n      \"year\": 2020,\n      \"finding\": \"GRA54 (TGGT1_204340) was identified as a MYR1-interacting protein via affinity purification of MYR1, and localizes to the parasitophorous vacuole (PV). However, GRA54 was not among the proteins shown to be essential for GRA16 translocation or host c-Myc/cyclin E1 upregulation in this study (unlike GRA44, GRA45, and MYR4).\",\n      \"method\": \"Affinity purification / co-immunoprecipitation of MYR1 followed by mass spectrometry; localization by imaging\",\n      \"journal\": \"mSphere\",\n      \"confidence\": \"Medium\",\n      \"confidence_rationale\": \"Tier 3 / Moderate — co-IP/affinity purification with MS identification; PV localization established, but functional requirement for translocation not tested for GRA54 specifically\",\n      \"pmids\": [\"32075880\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Toxoplasma gondii\", \"strain\": \"\"}\n      ]\n    }\n  ],\n  \"current_model\": \"GRA54 is a dense granule protein that localizes to the Toxoplasma gondii parasitophorous vacuole and physically associates with the effector-translocation complex component MYR1, though its specific functional role in effector translocation into host cells has not yet been experimentally established.\"\n}\n```","stage2_raw":"{\n  \"mechanistic_narrative\": \"GRA54 is a dense granule protein of Toxoplasma gondii that localizes to the parasitophorous vacuole and physically associates with the effector-translocation component MYR1 [#0]. Beyond this interaction and localization, GRA54 has no established functional role: it was not required for GRA16 translocation or host c-Myc/cyclin E1 upregulation in the study that identified it, and no further mechanistic detail has been characterized in the available corpus [#0].\",\n  \"teleology\": [\n    {\n      \"year\": 2020,\n      \"claim\": \"To map the machinery driving effector export across the parasitophorous vacuole membrane, the MYR1 interactome was defined, placing GRA54 within the MYR1-associated protein network at the PV.\",\n      \"evidence\": \"Affinity purification/co-immunoprecipitation of MYR1 with mass spectrometry identification and imaging-based localization in Toxoplasma gondii\",\n      \"pmids\": [\n        \"32075880\"\n      ],\n      \"confidence\": \"Medium\",\n      \"gaps\": [\n        \"GRA54 was not tested as required for GRA16 translocation or host c-Myc/cyclin E1 upregulation, unlike GRA44, GRA45, and MYR4\",\n        \"the MYR1 interaction was detected by affinity purification without reciprocal or direct binding validation\",\n        \"no molecular activity, substrate, or specific role in translocation established\"\n      ],\n      \"attribution\": [\n        {\n          \"species\": \"Toxoplasma gondii\",\n          \"strain\": \"\"\n        }\n      ]\n    },\n    {\n      \"year\": null,\n      \"claim\": \"Whether GRA54 contributes functionally to MYR1-dependent effector translocation, and by what mechanism, remains unresolved.\",\n      \"evidence\": \"\",\n      \"pmids\": [],\n      \"confidence\": \"Medium\",\n      \"gaps\": [\n        \"no functional or genetic test of GRA54 requirement for effector export\",\n        \"no defined molecular activity\",\n        \"no structural or interaction interface data\"\n      ],\n      \"attribution\": [\n        {\n          \"species\": \"Toxoplasma gondii\",\n          \"strain\": \"\"\n        }\n      ]\n    }\n  ],\n  \"mechanism_profile\": {\n    \"molecular_activity\": [],\n    \"localization\": [\n      {\n        \"term_id\": \"GO:0020003\",\n        \"supporting_discovery_ids\": [0],\n        \"attribution\": [\n          {\n            \"species\": \"Toxoplasma gondii\",\n            \"strain\": \"\"\n          }\n        ]\n      }\n    ],\n    \"pathway\": [],\n    \"complexes\": [],\n    \"partners\": [\n      \"MYR1\"\n    ],\n    \"other_free_text\": [\n      \"GRA54 (TGGT1_204340) is a dense granule protein identified as a MYR1-interacting protein by affinity purification/MS [#0].\",\n      \"GRA54 was not among the proteins shown to be essential for GRA16 translocation or host c-Myc/cyclin E1 upregulation, unlike GRA44, GRA45, and MYR4 [#0].\"\n    ]\n  },\n  \"strain_conflicts\": []\n}","audit_flag":null,"strains":[{"strain":"ME49","gene_id":"TGME49_204340","name":"GRA54","product":"dense granule protein GRA54","uniprot_acc":"S8F2P8","chromosome":"TGME49_chrVIIa","start_pos":1868940},{"strain":"GT1","gene_id":"TGGT1_204340","name":null,"product":"hypothetical protein","uniprot_acc":null,"chromosome":"TGGT1_chrVIIa","start_pos":1770608},{"strain":"RH88","gene_id":"TGRH88_034780","name":null,"product":"unspecified product","uniprot_acc":null,"chromosome":"CM023088","start_pos":1960220},{"strain":"VEG","gene_id":"TGVEG_204340","name":null,"product":"putative transmembrane protein","uniprot_acc":"B9PU35","chromosome":"TGVEG_chrVIIa","start_pos":1952069}]}