{"gene":"PF3D7_0609000","run_date":"2026-09-08T19:44:17","timeline":{"discoveries":[{"year":2022,"finding":"NUP637 (PF3D7_0609000) was verified as an interaction partner of the P. berghei NPC scaffold nucleoporin NUP313 by TurboID proximity labeling followed by affinity purification and mass spectrometry, placing NUP637 as a putative phenylalanine-glycine (FG) nucleoporin within the Plasmodium nuclear pore complex.","method":"TurboID proximity labeling, affinity purification, mass spectrometry","journal":"mBio","confidence":"Medium","confidence_rationale":"Tier 2 / Weak — proximity labeling with MS confirmation, single lab, single method; interaction verified but no direct functional characterization of NUP637 itself","pmids":["36040030"],"is_preprint":false,"attribution":[{"species":"Plasmodium berghei","strain":""}]},{"year":2018,"finding":"NUP637 was identified bioinformatically as a putative nucleoporin component of the P. berghei nuclear pore complex, predicted to contain phenylalanine-glycine repeats, and assigned an ortholog in P. falciparum; it was listed among Nups with potential nuclear periphery localization.","method":"Bioinformatic identification; genetic/fluorescence tagging of selected NPC components in P. berghei (NUP637 itself was not directly tagged in this study)","journal":"Scientific reports","confidence":"Low","confidence_rationale":"Tier 4 / Weak — computational prediction for NUP637 specifically; direct experimental localization was performed for other Nups, not NUP637","pmids":["30050042"],"is_preprint":false,"attribution":[{"species":"Plasmodium berghei","strain":""},{"species":"Plasmodium falciparum","strain":""}]},{"year":2026,"finding":"NUP637 (PF3D7_0609000) co-purified with PfDPL (a cryptochrome-like protein) in P. falciparum gametocytes by co-immunoprecipitation/mass spectrometry, placing NUP637 among nuclear-pore constituents physically associated with a multiprotein complex that also includes NUP313, NUP138, and NUP176.","method":"Co-immunoprecipitation coupled to mass spectrometry (IP-MS)","journal":"Nature communications","confidence":"Low","confidence_rationale":"Tier 3 / Weak — single Co-IP/MS result, single lab; NUP637 is one of many co-purified proteins and no direct functional characterization of NUP637 was performed","pmids":["41986327"],"is_preprint":false,"attribution":[{"species":"Plasmodium falciparum","strain":""}]}],"current_model":"NUP637 (PF3D7_0609000) is a putative phenylalanine-glycine nucleoporin of the Plasmodium nuclear pore complex, verified as a proximity/physical interaction partner of the NPC scaffold nucleoporin NUP313 in P. berghei and found co-purifying with other NPC components (NUP313, NUP138, NUP176) in P. falciparum gametocytes, but no direct enzymatic activity, structure, localization by direct imaging, or loss-of-function phenotype has been experimentally established for NUP637 itself."},"narrative":{"mechanistic_narrative":"NUP637 (PF3D7_0609000) is a putative phenylalanine-glycine (FG) nucleoporin of the Plasmodium nuclear pore complex, established primarily through its association with other NPC components rather than through direct functional study [PMID:36040030]. In P. berghei, NUP637 was verified by TurboID proximity labeling and mass spectrometry as an interaction partner of the NPC scaffold nucleoporin NUP313, placing it within the nuclear pore complex [PMID:36040030]. In P. falciparum gametocytes, NUP637 co-purified with a multiprotein complex containing the NPC constituents NUP313, NUP138, and NUP176 [PMID:41986327]. Beyond this membership in the nuclear pore complex, no direct enzymatic activity, structure, imaging-based localization, or loss-of-function phenotype has been experimentally established for NUP637 itself in the available corpus.","teleology":[{"year":2018,"claim":"The question of whether PF3D7_0609000 belongs to the Plasmodium nuclear pore machinery was first addressed by cataloguing candidate nucleoporins, positioning NUP637 as a putative FG-nucleoporin.","evidence":"Bioinformatic identification of NPC components in P. berghei with FG-repeat prediction and P. falciparum ortholog assignment","pmids":["30050042"],"confidence":"Low","gaps":["Prediction only — NUP637 itself was not directly tagged or localized in this study","FG-repeat content inferred computationally, not verified biochemically","No functional role assigned"],"attribution":[{"species":"Plasmodium berghei","strain":""},{"species":"Plasmodium falciparum","strain":""}]},{"year":2022,"claim":"Whether NUP637 physically associates with the NPC scaffold was tested directly, confirming it as a proximity partner of NUP313 within the nuclear pore complex.","evidence":"TurboID proximity labeling, affinity purification, and mass spectrometry in P. berghei","pmids":["36040030"],"confidence":"Medium","gaps":["Proximity labeling from a single lab and single method; no reciprocal validation","Does not establish direct binding versus co-proximity within the NPC","No functional characterization of NUP637 itself"],"attribution":[{"species":"Plasmodium berghei","strain":""}]},{"year":2026,"claim":"Whether NUP637 associates with other NPC constituents in a distinct life-cycle stage was addressed in P. falciparum gametocytes, showing it co-purifies with a complex containing NUP313, NUP138, and NUP176.","evidence":"Co-immunoprecipitation coupled to mass spectrometry (IP-MS) in P. falciparum gametocytes","pmids":["41986327"],"confidence":"Low","gaps":["Single Co-IP/MS result; NUP637 is one of many co-purified proteins","No demonstration that NUP637 is required for the complex or for gametocyte biology","Relationship to the cryptochrome-like protein PfDPL bait not resolved for NUP637 specifically"],"attribution":[{"species":"Plasmodium falciparum","strain":""}]},{"year":null,"claim":"No direct enzymatic activity, structure, imaging-based localization, or loss-of-function phenotype has been established for NUP637 itself; its specific role within the nuclear pore complex remains uncharacterized.","evidence":"","pmids":[],"confidence":"Low","gaps":["No direct subcellular imaging of NUP637","No genetic knockout or knockdown phenotype","No structural or biochemical characterization of its FG repeats or barrier function"],"attribution":[]}],"mechanism_profile":{"molecular_activity":[],"localization":[],"pathway":[],"complexes":["Nuclear pore complex (with NUP313, NUP138, NUP176)"],"partners":["NUP313","NUP138","NUP176","PFDPL"],"other_free_text":["Verified as a proximity/interaction partner of NUP313 in P. berghei [#0]","Co-purified with an NPC-associated multiprotein complex in P. falciparum gametocytes [#2]","Predicted FG-nucleoporin; no direct enzymatic activity, structure, imaging localization, or loss-of-function phenotype established for NUP637 itself"]}},"prefetch_data":{},"corpus_meta":[{"pmid":"30050042","id":"PMC_30050042","title":"Nuclear Pore Complex Components in the Malaria Parasite Plasmodium berghei.","date":"2018","source":"Scientific reports","url":"https://pubmed.ncbi.nlm.nih.gov/30050042","citation_count":20,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["curated_ref"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"36040030","id":"PMC_36040030","title":"TurboID Identification of Evolutionarily Divergent Components of the Nuclear Pore Complex in the Malaria Model Plasmodium berghei.","date":"2022","source":"mBio","url":"https://pubmed.ncbi.nlm.nih.gov/36040030","citation_count":14,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["NUP637"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"41885428","id":"","title":"A heterologous marker-free selection approach for CRISPR/Cas9-based gene editing in the malaria parasite Plasmodium falciparum.","date":"2026","source":"mSphere","url":"https://pubmed.ncbi.nlm.nih.gov/41885428","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["NUP637"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"41986327","id":"","title":"GID/CTLH E3 ligase complex control cell fate programs for sexual development of Plasmodium falciparum.","date":"2026","source":"Nature communications","url":"https://pubmed.ncbi.nlm.nih.gov/41986327","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["NUP637"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"39526784","id":"","title":"Nuclear pore complexes undergo Nup221 exchange during blood-stage asexual replication of Plasmodium parasites.","date":"2024","source":"mSphere","url":"https://pubmed.ncbi.nlm.nih.gov/39526784","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["NUP637"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"34604117","id":"","title":"Roles and Cellular Localization of GBP2 and NAB2 During the Blood Stage of Malaria Parasites.","date":"2021","source":"Frontiers in cellular and infection microbiology","url":"https://pubmed.ncbi.nlm.nih.gov/34604117","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["NUP637"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false}],"cost":{"stage1":{"model":"claude-sonnet-4-6","input_tokens":8706,"output_tokens":974,"usd":0.020364,"stage1_stop_reason":"end_turn"},"stage2":{"model":"claude-opus-4-8","input_tokens":5667,"output_tokens":1783,"usd":0.036455,"stage2_stop_reason":"end_turn"},"total_usd":0.056819,"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\": \"NUP637 (PF3D7_0609000) was verified as an interaction partner of the P. berghei NPC scaffold nucleoporin NUP313 by TurboID proximity labeling followed by affinity purification and mass spectrometry, placing NUP637 as a putative phenylalanine-glycine (FG) nucleoporin within the Plasmodium nuclear pore complex.\",\n      \"method\": \"TurboID proximity labeling, affinity purification, mass spectrometry\",\n      \"journal\": \"mBio\",\n      \"confidence\": \"Medium\",\n      \"confidence_rationale\": \"Tier 2 / Weak — proximity labeling with MS confirmation, single lab, single method; interaction verified but no direct functional characterization of NUP637 itself\",\n      \"pmids\": [\"36040030\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Plasmodium berghei\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": 2018,\n      \"finding\": \"NUP637 was identified bioinformatically as a putative nucleoporin component of the P. berghei nuclear pore complex, predicted to contain phenylalanine-glycine repeats, and assigned an ortholog in P. falciparum; it was listed among Nups with potential nuclear periphery localization.\",\n      \"method\": \"Bioinformatic identification; genetic/fluorescence tagging of selected NPC components in P. berghei (NUP637 itself was not directly tagged in this study)\",\n      \"journal\": \"Scientific reports\",\n      \"confidence\": \"Low\",\n      \"confidence_rationale\": \"Tier 4 / Weak — computational prediction for NUP637 specifically; direct experimental localization was performed for other Nups, not NUP637\",\n      \"pmids\": [\"30050042\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Plasmodium berghei\", \"strain\": \"\"},\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": 2026,\n      \"finding\": \"NUP637 (PF3D7_0609000) co-purified with PfDPL (a cryptochrome-like protein) in P. falciparum gametocytes by co-immunoprecipitation/mass spectrometry, placing NUP637 among nuclear-pore constituents physically associated with a multiprotein complex that also includes NUP313, NUP138, and NUP176.\",\n      \"method\": \"Co-immunoprecipitation coupled to mass spectrometry (IP-MS)\",\n      \"journal\": \"Nature communications\",\n      \"confidence\": \"Low\",\n      \"confidence_rationale\": \"Tier 3 / Weak — single Co-IP/MS result, single lab; NUP637 is one of many co-purified proteins and no direct functional characterization of NUP637 was performed\",\n      \"pmids\": [\"41986327\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    }\n  ],\n  \"current_model\": \"NUP637 (PF3D7_0609000) is a putative phenylalanine-glycine nucleoporin of the Plasmodium nuclear pore complex, verified as a proximity/physical interaction partner of the NPC scaffold nucleoporin NUP313 in P. berghei and found co-purifying with other NPC components (NUP313, NUP138, NUP176) in P. falciparum gametocytes, but no direct enzymatic activity, structure, localization by direct imaging, or loss-of-function phenotype has been experimentally established for NUP637 itself.\"\n}\n```","stage2_raw":"{\n  \"mechanistic_narrative\": \"NUP637 (PF3D7_0609000) is a putative phenylalanine-glycine (FG) nucleoporin of the Plasmodium nuclear pore complex, established primarily through its association with other NPC components rather than through direct functional study [#0]. In P. berghei, NUP637 was verified by TurboID proximity labeling and mass spectrometry as an interaction partner of the NPC scaffold nucleoporin NUP313, placing it within the nuclear pore complex [#0]. In P. falciparum gametocytes, NUP637 co-purified with a multiprotein complex containing the NPC constituents NUP313, NUP138, and NUP176 [#2]. Beyond this membership in the nuclear pore complex, no direct enzymatic activity, structure, imaging-based localization, or loss-of-function phenotype has been experimentally established for NUP637 itself in the available corpus.\",\n  \"teleology\": [\n    {\n      \"year\": 2018,\n      \"claim\": \"The question of whether PF3D7_0609000 belongs to the Plasmodium nuclear pore machinery was first addressed by cataloguing candidate nucleoporins, positioning NUP637 as a putative FG-nucleoporin.\",\n      \"evidence\": \"Bioinformatic identification of NPC components in P. berghei with FG-repeat prediction and P. falciparum ortholog assignment\",\n      \"pmids\": [\"30050042\"],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"Prediction only \\u2014 NUP637 itself was not directly tagged or localized in this study\",\n        \"FG-repeat content inferred computationally, not verified biochemically\",\n        \"No functional role assigned\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Plasmodium berghei\", \"strain\": \"\"},\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": 2022,\n      \"claim\": \"Whether NUP637 physically associates with the NPC scaffold was tested directly, confirming it as a proximity partner of NUP313 within the nuclear pore complex.\",\n      \"evidence\": \"TurboID proximity labeling, affinity purification, and mass spectrometry in P. berghei\",\n      \"pmids\": [\"36040030\"],\n      \"confidence\": \"Medium\",\n      \"gaps\": [\n        \"Proximity labeling from a single lab and single method; no reciprocal validation\",\n        \"Does not establish direct binding versus co-proximity within the NPC\",\n        \"No functional characterization of NUP637 itself\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Plasmodium berghei\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": 2026,\n      \"claim\": \"Whether NUP637 associates with other NPC constituents in a distinct life-cycle stage was addressed in P. falciparum gametocytes, showing it co-purifies with a complex containing NUP313, NUP138, and NUP176.\",\n      \"evidence\": \"Co-immunoprecipitation coupled to mass spectrometry (IP-MS) in P. falciparum gametocytes\",\n      \"pmids\": [\"41986327\"],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"Single Co-IP/MS result; NUP637 is one of many co-purified proteins\",\n        \"No demonstration that NUP637 is required for the complex or for gametocyte biology\",\n        \"Relationship to the cryptochrome-like protein PfDPL bait not resolved for NUP637 specifically\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": null,\n      \"claim\": \"No direct enzymatic activity, structure, imaging-based localization, or loss-of-function phenotype has been established for NUP637 itself; its specific role within the nuclear pore complex remains uncharacterized.\",\n      \"evidence\": \"\",\n      \"pmids\": [],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"No direct subcellular imaging of NUP637\",\n        \"No genetic knockout or knockdown phenotype\",\n        \"No structural or biochemical characterization of its FG repeats or barrier function\"\n      ],\n      \"attribution\": []\n    }\n  ],\n  \"mechanism_profile\": {\n    \"molecular_activity\": [\n      {\"term_id\": \"GO:0017056\", \"supporting_discovery_ids\": [0, 1]}\n    ],\n    \"localization\": [\n      {\"term_id\": \"GO:0005643\", \"supporting_discovery_ids\": [0, 1, 2]}\n    ],\n    \"pathway\": [],\n    \"complexes\": [\"Nuclear pore complex (with NUP313, NUP138, NUP176)\"],\n    \"partners\": [\"NUP313\", \"NUP138\", \"NUP176\", \"PfDPL\"],\n    \"other_free_text\": [\n      \"Verified as a proximity/interaction partner of NUP313 in P. berghei [#0]\",\n      \"Co-purified with an NPC-associated multiprotein complex in P. falciparum gametocytes [#2]\",\n      \"Predicted FG-nucleoporin; no direct enzymatic activity, structure, imaging localization, or loss-of-function phenotype established for NUP637 itself\"\n    ]\n  }\n}","audit_flag":null,"strains":[{"strain":"Pf3D7","gene_id":"PF3D7_0609000","name":null,"product":"nucleoporin NUP637, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PbANKA","gene_id":"PBANKA_0107600","name":null,"product":"nucleoporin NUP637, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PkH","gene_id":"PKNH_1141200","name":null,"product":"nucleoporin NUP637, putative","uniprot_acc":null,"chromosome":null,"start_pos":null}],"gene_symbol":"NUP637","evaluation":null}