{"gene":"PF3D7_0505200","run_date":"2026-09-08T16:26:55","timeline":{"discoveries":[{"year":2024,"finding":"ALP2b (PF3D7_0505200) was identified as a component of the PfSWR1 chromatin remodeling complex in P. falciparum, detected by pulldown of PfEAF2 (a shared subunit of NuA4 and SWR1 complexes) followed by mass spectrometry.","method":"Affinity pulldown (PfEAF2 bait) followed by mass spectrometry identification","journal":"mSphere","confidence":"Low","confidence_rationale":"Tier 3 / Weak — single pulldown/MS identification of ALP2b as a co-purifying protein; no reciprocal pulldown, mutagenesis, or functional validation specific to ALP2b","pmids":["38564734"],"is_preprint":false,"attribution":[{"species":"Plasmodium falciparum","strain":""}]},{"year":2024,"finding":"The P. berghei ortholog of ALP2b (PBANKA_1104800) was identified as a co-immunoprecipitated protein with PbARID, a subunit of a SWI/SNF chromatin remodeling complex, suggesting ALP2b may interact with the ATPase subunit gSNF2 via its HSA domain as one of the actin-related proteins associated with the SWI/SNF complex.","method":"Co-immunoprecipitation (PbARID bait) followed by mass spectrometry (RIME)","journal":"Nucleic acids research","confidence":"Low","confidence_rationale":"Tier 3 / Weak — single co-IP/MS identification; no direct functional validation of ALP2b's role or direct binding assay with gSNF2 performed for this protein specifically","pmids":["38554111"],"is_preprint":false,"attribution":[{"species":"Plasmodium berghei","strain":""}]}],"current_model":"ALP2b (PF3D7_0505200) is a putative actin-like protein identified by co-purification experiments as a component of the SWR1/SWI-SNF chromatin remodeling complexes in P. falciparum and P. berghei, likely interacting with the ATPase subunit through its HSA domain, but no direct functional characterization of ALP2b itself has been reported."},"narrative":{"mechanistic_narrative":"ALP2b (PF3D7_0505200) is a putative actin-like protein whose only characterized role in the available corpus is as a co-purifying component of chromatin remodeling complexes. In P. falciparum, ALP2b was detected as part of the PfSWR1 complex through affinity pulldown of the shared NuA4/SWR1 subunit PfEAF2 followed by mass spectrometry [PMID:38564734]. In P. berghei, its ortholog (PBANKA_1104800) co-immunoprecipitated with PbARID, a subunit of a SWI/SNF chromatin remodeling complex, placing it among the actin-related proteins that may associate with the ATPase subunit gSNF2 via an HSA domain [PMID:38554111]. Beyond this complex membership, no direct functional characterization of ALP2b — its biochemical activity, direct binding partners, or a specific role separable from the complex — has been reported in the available corpus.","teleology":[{"year":2024,"claim":"Establishing the physical context of ALP2b addressed whether this putative actin-like protein associates with nuclear chromatin machinery, by placing it within the PfSWR1 remodeling complex.","evidence":"Affinity pulldown with PfEAF2 bait followed by mass spectrometry in P. falciparum","pmids":["38564734"],"confidence":"Low","gaps":["Single pulldown/MS identification with no reciprocal pulldown, mutagenesis, or functional validation specific to ALP2b","Direct binding partner within the complex not established","Whether ALP2b has a role separable from the complex is unknown"],"attribution":[{"species":"Plasmodium falciparum","strain":""}]},{"year":2024,"claim":"The orthologous finding tested whether ALP2b's complex association is conserved, showing the P. berghei ortholog co-purifies with a SWI/SNF subunit and may contact the gSNF2 ATPase.","evidence":"Co-immunoprecipitation with PbARID bait followed by mass spectrometry (RIME) in P. berghei","pmids":["38554111"],"confidence":"Low","gaps":["Single co-IP/MS identification with no direct binding assay for ALP2b with gSNF2","HSA-domain-mediated interaction inferred, not demonstrated for this protein","No functional or phenotypic assay of ALP2b loss"],"attribution":[{"species":"Plasmodium berghei","strain":""}]},{"year":null,"claim":"Whether ALP2b performs any specific molecular function within these remodeling complexes — and whether it is essential, structural, or regulatory — remains unresolved.","evidence":"","pmids":[],"confidence":"Low","gaps":["No direct binding assay confirming interaction with gSNF2 or other subunits","No genetic knockout/knockdown phenotype for ALP2b","No biochemical demonstration of actin-like activity"],"attribution":[]}],"mechanism_profile":{"molecular_activity":[],"localization":[],"pathway":[],"complexes":["PfSWR1 chromatin remodeling complex (P. falciparum)","SWI/SNF chromatin remodeling complex (P. berghei)"],"partners":["PFEAF2 (CO-PURIFYING BAIT, P. FALCIPARUM)","PBARID (CO-PURIFYING BAIT, P. BERGHEI)","GSNF2 (PUTATIVE ATPASE INTERACTOR VIA HSA DOMAIN, P. BERGHEI)"],"other_free_text":["Identified only as a co-purifying complex component; no direct functional characterization of ALP2b itself reported in the available corpus."]}},"prefetch_data":{},"corpus_meta":[{"pmid":"42629988","id":"PMC_42629988","title":"Plasmodium Actin-Like Proteins 3 and 5a Are Required for Subsequent Steps of Mosquito Infection.","date":"2026","source":"Molecular microbiology","url":"https://pubmed.ncbi.nlm.nih.gov/42629988","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["actin-like protein"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"38564734","id":"","title":"MYST regulates DNA repair and forms a NuA4-like complex in the malaria parasite Plasmodium falciparum.","date":"2024","source":"mSphere","url":"https://pubmed.ncbi.nlm.nih.gov/38564734","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["ALP2b"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false},{"pmid":"38554111","id":"","title":"PbARID-associated chromatin remodeling events are essential for gametocyte development in Plasmodium.","date":"2024","source":"Nucleic acids research","url":"https://pubmed.ncbi.nlm.nih.gov/38554111","citation_count":0,"is_preprint":false,"source_species":["Pf"],"role":"primary","match_terms":["ALP2b"],"competing_organism_flag":false,"competing_organism_match":"","competing_organism_only":false}],"cost":{"stage1":{"model":"claude-sonnet-4-6","input_tokens":6362,"output_tokens":668,"usd":0.014553,"stage1_stop_reason":"end_turn"},"stage2":{"model":"claude-opus-4-8","input_tokens":5226,"output_tokens":1437,"usd":0.031027,"stage2_stop_reason":"end_turn"},"total_usd":0.04558,"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\": 2024,\n      \"finding\": \"ALP2b (PF3D7_0505200) was identified as a component of the PfSWR1 chromatin remodeling complex in P. falciparum, detected by pulldown of PfEAF2 (a shared subunit of NuA4 and SWR1 complexes) followed by mass spectrometry.\",\n      \"method\": \"Affinity pulldown (PfEAF2 bait) followed by mass spectrometry identification\",\n      \"journal\": \"mSphere\",\n      \"confidence\": \"Low\",\n      \"confidence_rationale\": \"Tier 3 / Weak — single pulldown/MS identification of ALP2b as a co-purifying protein; no reciprocal pulldown, mutagenesis, or functional validation specific to ALP2b\",\n      \"pmids\": [\"38564734\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": 2024,\n      \"finding\": \"The P. berghei ortholog of ALP2b (PBANKA_1104800) was identified as a co-immunoprecipitated protein with PbARID, a subunit of a SWI/SNF chromatin remodeling complex, suggesting ALP2b may interact with the ATPase subunit gSNF2 via its HSA domain as one of the actin-related proteins associated with the SWI/SNF complex.\",\n      \"method\": \"Co-immunoprecipitation (PbARID bait) followed by mass spectrometry (RIME)\",\n      \"journal\": \"Nucleic acids research\",\n      \"confidence\": \"Low\",\n      \"confidence_rationale\": \"Tier 3 / Weak — single co-IP/MS identification; no direct functional validation of ALP2b's role or direct binding assay with gSNF2 performed for this protein specifically\",\n      \"pmids\": [\"38554111\"],\n      \"is_preprint\": false,\n      \"attribution\": [\n        {\"species\": \"Plasmodium berghei\", \"strain\": \"\"}\n      ]\n    }\n  ],\n  \"current_model\": \"ALP2b (PF3D7_0505200) is a putative actin-like protein identified by co-purification experiments as a component of the SWR1/SWI-SNF chromatin remodeling complexes in P. falciparum and P. berghei, likely interacting with the ATPase subunit through its HSA domain, but no direct functional characterization of ALP2b itself has been reported.\"\n}\n```","stage2_raw":"```json\n{\n  \"mechanistic_narrative\": \"ALP2b (PF3D7_0505200) is a putative actin-like protein whose only characterized role in the available corpus is as a co-purifying component of chromatin remodeling complexes. In P. falciparum, ALP2b was detected as part of the PfSWR1 complex through affinity pulldown of the shared NuA4/SWR1 subunit PfEAF2 followed by mass spectrometry [#0]. In P. berghei, its ortholog (PBANKA_1104800) co-immunoprecipitated with PbARID, a subunit of a SWI/SNF chromatin remodeling complex, placing it among the actin-related proteins that may associate with the ATPase subunit gSNF2 via an HSA domain [#1]. Beyond this complex membership, no direct functional characterization of ALP2b — its biochemical activity, direct binding partners, or a specific role separable from the complex — has been reported in the available corpus.\",\n  \"teleology\": [\n    {\n      \"year\": 2024,\n      \"claim\": \"Establishing the physical context of ALP2b addressed whether this putative actin-like protein associates with nuclear chromatin machinery, by placing it within the PfSWR1 remodeling complex.\",\n      \"evidence\": \"Affinity pulldown with PfEAF2 bait followed by mass spectrometry in P. falciparum\",\n      \"pmids\": [\"38564734\"],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"Single pulldown/MS identification with no reciprocal pulldown, mutagenesis, or functional validation specific to ALP2b\",\n        \"Direct binding partner within the complex not established\",\n        \"Whether ALP2b has a role separable from the complex is unknown\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Plasmodium falciparum\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": 2024,\n      \"claim\": \"The orthologous finding tested whether ALP2b's complex association is conserved, showing the P. berghei ortholog co-purifies with a SWI/SNF subunit and may contact the gSNF2 ATPase.\",\n      \"evidence\": \"Co-immunoprecipitation with PbARID bait followed by mass spectrometry (RIME) in P. berghei\",\n      \"pmids\": [\"38554111\"],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"Single co-IP/MS identification with no direct binding assay for ALP2b with gSNF2\",\n        \"HSA-domain-mediated interaction inferred, not demonstrated for this protein\",\n        \"No functional or phenotypic assay of ALP2b loss\"\n      ],\n      \"attribution\": [\n        {\"species\": \"Plasmodium berghei\", \"strain\": \"\"}\n      ]\n    },\n    {\n      \"year\": null,\n      \"claim\": \"Whether ALP2b performs any specific molecular function within these remodeling complexes — and whether it is essential, structural, or regulatory — remains unresolved.\",\n      \"evidence\": \"\",\n      \"pmids\": [],\n      \"confidence\": \"Low\",\n      \"gaps\": [\n        \"No direct binding assay confirming interaction with gSNF2 or other subunits\",\n        \"No genetic knockout/knockdown phenotype for ALP2b\",\n        \"No biochemical demonstration of actin-like activity\"\n      ],\n      \"attribution\": []\n    }\n  ],\n  \"mechanism_profile\": {\n    \"molecular_activity\": [],\n    \"localization\": [],\n    \"pathway\": [\n      {\"term_id\": \"GO:0006338\", \"supporting_discovery_ids\": [0, 1]}\n    ],\n    \"complexes\": [\n      \"PfSWR1 chromatin remodeling complex (P. falciparum)\",\n      \"SWI/SNF chromatin remodeling complex (P. berghei)\"\n    ],\n    \"partners\": [\n      \"PfEAF2 (co-purifying bait, P. falciparum)\",\n      \"PbARID (co-purifying bait, P. berghei)\",\n      \"gSNF2 (putative ATPase interactor via HSA domain, P. berghei)\"\n    ],\n    \"other_free_text\": [\n      \"Identified only as a co-purifying complex component; no direct functional characterization of ALP2b itself reported in the available corpus.\"\n    ]\n  }\n}\n```","audit_flag":null,"strains":[{"strain":"Pf3D7","gene_id":"PF3D7_0505200","name":null,"product":"actin-like protein, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PbANKA","gene_id":"PBANKA_1104800","name":null,"product":"actin-like protein, putative","uniprot_acc":null,"chromosome":null,"start_pos":null},{"strain":"PkH","gene_id":"PKNH_1028400","name":null,"product":"actin-like protein, putative","uniprot_acc":null,"chromosome":null,"start_pos":null}],"gene_symbol":"ALP2b","evaluation":null}