{
  "version": {
    "version": "phase5-1.0.0",
    "date": "2026-10-26",
    "frozen_database_sha256": "0c53107a39e222b48611302b21fda5fb4ed50b190b6b39d41423ccc5ca5958f6",
    "chemical_identities": 148,
    "profiles": 163,
    "relevant_profiles": 132,
    "preparations": 30,
    "observations": 80,
    "frozen_observations": 46,
    "new_observations": 34,
    "bioactivity_only_profiles": 21,
    "exact_PWWP_structural_profiles": 130,
    "verified_depictions": 139,
    "reconciled_duplicate_rows": 0,
    "candidate_records": 150,
    "curated_scope": "Documented targeted snapshot; not an exhaustive inventory of all literature compounds. Coordinate proximity and assay measurements are independent evidence dimensions."
  },
  "filters": {
    "q": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
    "protein": "",
    "domain": "",
    "bound": "",
    "pdb": "",
    "identity": "",
    "role": "",
    "method": "",
    "endpoint": "",
    "relation": "",
    "potency_min": "",
    "potency_max": "",
    "source": "",
    "year": "",
    "organism": "",
    "construct": "",
    "status": "",
    "missing": "",
    "scope": "all_components",
    "view": "gallery",
    "sort": ""
  },
  "compounds": [
    {
      "aliases": [
        "MALONIC ACID"
      ],
      "assay_count": 0,
      "associated_pdb_ids": [
        "6IIQ"
      ],
      "bound_structure_count": 1,
      "category": "Structure-supported identity",
      "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
      "classifications": [],
      "compound_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
      "curation_version": "phase5-1.0.0",
      "depiction": {
        "calculated_HBA": 2,
        "calculated_HBD": 2,
        "calculated_TPSA": 74.6,
        "calculated_formula": "C3H4O4",
        "calculated_logP": -0.4543,
        "calculated_molecular_weight": 104.061,
        "computed_inchikey": "OFOBLEOULBTSOW-UHFFFAOYSA-N",
        "descriptor_scope": "RDKit calculation for the source identity; not an experimental measurement",
        "files": {
          "dark": "416acf585e4b2d7de62f-dark.svg",
          "light": "416acf585e4b2d7de62f-light.svg"
        },
        "rdkit_version": "2025.09.3",
        "status": "verified_smiles_full_inchikey_match"
      },
      "development_status": "Not independently curated",
      "domain_ids": [
        "UP:Q9Y3E1:PWWP1"
      ],
      "entity_kind": "chemical_identity",
      "genes": [
        "HDGFL3"
      ],
      "has_bioactivity_only": false,
      "has_source_conflict": false,
      "identity": {
        "aliases": [
          "MALONIC ACID"
        ],
        "ccd_ids": [
          "MLA"
        ],
        "ccd_names": "[\"MALONIC ACID\"]",
        "ccd_types": "[\"non-polymer\"]",
        "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
        "connectivity_block": "OFOBLEOULBTSOW",
        "curated_source_sha256": null,
        "curation_version": "frozen-v1.2",
        "external_identifiers": {},
        "formal_charge_by_ccd": "{\"MLA\": 0}",
        "formulae": "[\"C3 H4 O4\"]",
        "geometry_note": "CCD ideal SDF is a reference chemical geometry, not a deposited bound pose.",
        "identity_status": "complete_deposited_InChIKey",
        "inchikey": "OFOBLEOULBTSOW-UHFFFAOYSA-N",
        "inventory_origin": "v1_CCD_inventory",
        "isomeric_smiles": "C(C(=O)O)C(=O)O",
        "primary_name": "MALONIC ACID",
        "retrieval_date": "2026-10-24",
        "smiles_stereo_by_ccd": "{\"MLA\": \"C(C(=O)O)C(=O)O\"}",
        "source_metadata_sha256": "{\"MLA\": \"74c47d9bfe4b8bf674d2caaaba18d8b80abec9aa577d8749e2fafc56d54c782a\"}",
        "source_urls": [
          "https://www.rcsb.org/ligand/MLA"
        ]
      },
      "identity_note": "complete_deposited_InChIKey",
      "identity_resolved": true,
      "is_control": false,
      "is_probe": false,
      "measured_observation_count": 0,
      "name": "MALONIC ACID",
      "negative_count": 0,
      "observation_ids": [],
      "pdb_structure_count": 1,
      "preparation_count": 0,
      "preparation_ids": [],
      "protein_ids": [
        "UP:Q9Y3E1"
      ],
      "relationships": [],
      "relevant": false,
      "search_text": "malonic acid inchikey:ofobleoulbtsow-uhfffaoysa-n malonic acid hdgfl3 up:q9y3e1:pwwp1 6iiq {\"aliases\":[\"malonic acid\"],\"ccd_ids\":[\"mla\"],\"ccd_names\":\"[\\\"malonic acid\\\"]\",\"ccd_types\":\"[\\\"non-polymer\\\"]\",\"chemical_id\":\"inchikey:ofobleoulbtsow-uhfffaoysa-n\",\"connectivity_block\":\"ofobleoulbtsow\",\"curated_source_sha256\":null,\"curation_version\":\"frozen-v1.2\",\"external_identifiers\":{},\"formal_charge_by_ccd\":\"{\\\"mla\\\": 0}\",\"formulae\":\"[\\\"c3 h4 o4\\\"]\",\"geometry_note\":\"ccd ideal sdf is a reference chemical geometry, not a deposited bound pose.\",\"identity_status\":\"complete_deposited_inchikey\",\"inchikey\":\"ofobleoulbtsow-uhfffaoysa-n\",\"inventory_origin\":\"v1_ccd_inventory\",\"isomeric_smiles\":\"c(c(=o)o)c(=o)o\",\"primary_name\":\"malonic acid\",\"retrieval_date\":\"2026-10-24\",\"smiles_stereo_by_ccd\":\"{\\\"mla\\\": \\\"c(c(=o)o)c(=o)o\\\"}\",\"source_metadata_sha256\":\"{\\\"mla\\\": \\\"74c47d9bfe4b8bf674d2caaaba18d8b80abec9aa577d8749e2fafc56d54c782a\\\"}\",\"source_urls\":[\"https://www.rcsb.org/ligand/mla\"]}",
      "source_urls": [
        "https://www.rcsb.org/ligand/MLA"
      ],
      "verification_pending": false,
      "context_observations": [],
      "context_structures": [
        {
          "Pfam_contacts_5A": "[{\"auth_asym_id\": \"A\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 4.664, \"uniprot_position\": 17}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1788, \"uniprot_position\": 19}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1866, \"uniprot_position\": 22}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 4.6737, \"uniprot_position\": 23}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 2.9269, \"uniprot_position\": 25}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.2054, \"uniprot_position\": 48}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 2.7177, \"uniprot_position\": 51}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1204, \"uniprot_position\": 53}]",
          "biochemical_activity_inferred": 0,
          "ccd_id": "MLA",
          "chain_contacts_5A": "[{\"auth_asym_id\": \"A\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 4.664, \"uniprot_position\": 17}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1788, \"uniprot_position\": 19}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1866, \"uniprot_position\": 22}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 4.6737, \"uniprot_position\": 23}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 2.9269, \"uniprot_position\": 25}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.2054, \"uniprot_position\": 48}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 2.7177, \"uniprot_position\": 51}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1204, \"uniprot_position\": 53}]",
          "chain_id": "PDB:6IIQ:CHAIN:A:UP:Q9Y3E1",
          "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "contact_class": "native_annotation_core_contact",
          "contact_distance_rank": 1,
          "core_contacts_5A": "[{\"auth_asym_id\": \"A\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 4.664, \"uniprot_position\": 17}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1788, \"uniprot_position\": 19}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1866, \"uniprot_position\": 22}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 4.6737, \"uniprot_position\": 23}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 2.9269, \"uniprot_position\": 25}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.2054, \"uniprot_position\": 48}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 2.7177, \"uniprot_position\": 51}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1204, \"uniprot_position\": 53}]",
          "covalent_connection_ids": "[]",
          "cutoff_angstrom": 5.0,
          "domain_id": "UP:Q9Y3E1:PWWP1",
          "exact_pwwp_contact": true,
          "gene": "HDGFL3",
          "geometry_scope": "first deposited model; asymmetric unit; heavy atoms with occupancy >0; alternate locations retained; no symmetry expansion",
          "instance": {
            "alternate_locations": "[]",
            "auth_asym_ids": "[\"A\"]",
            "auth_seq_id": "101",
            "ccd_id": "MLA",
            "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
            "component_context": "nonpolymer_component",
            "contacted_polymer_partners": "[{\"description\": \"Hepatoma-derived growth factor-related protein 3\", \"entity_id\": \"1\", \"is_PWWP_family_protein\": true, \"label_asym_id\": \"A\", \"sequence_length\": 100, \"uniprot_ids\": [\"Q9Y3E1\"]}]",
            "covalent_connection_ids": "[]",
            "heavy_atom_row_count": 7,
            "ideal_CCD_SDF_is_source_pose": 0,
            "label_asym_id": "H",
            "label_seq_id": null,
            "ligand_instance_id": "PDB:6IIQ:LIG:H:MLA:101:.",
            "nearest_polypeptide_distance_angstrom": 2.7177,
            "nearest_polypeptide_label_asym_id": "A",
            "occupancy_max": 1.0,
            "occupancy_min": 1.0,
            "pdb_id": "6IIQ",
            "polypeptide_contact_residues_5A": "[{\"auth_asym_id\": \"A\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 4.664, \"uniprot_position\": null}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1788, \"uniprot_position\": null}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1866, \"uniprot_position\": null}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 4.6737, \"uniprot_position\": null}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 2.9269, \"uniprot_position\": null}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.2054, \"uniprot_position\": null}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 2.7177, \"uniprot_position\": null}, {\"auth_asym_id\": \"A\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"A\", \"minimum_distance_angstrom\": 3.1204, \"uniprot_position\": null}]",
            "pose_kind": "deposited_source_coordinates",
            "reference_model": "1",
            "source_coordinate_file": "Structures/HDGFL3__HUMAN__Q9Y3E1/Complexes/6IIQ/original.cif",
            "source_coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29",
            "unique_heavy_atom_names": 7
          },
          "ligand_instance_id": "PDB:6IIQ:LIG:H:MLA:101:.",
          "ligand_label_asym_id": "H",
          "minimum_Pfam_distance_angstrom": 2.7177,
          "minimum_chain_distance_angstrom": 2.7177,
          "minimum_core_distance_angstrom": 2.7177,
          "multiple_contacting_mapped_chains": 0,
          "pdb_id": "6IIQ",
          "protein_id": "UP:Q9Y3E1",
          "protein_label_asym_id": "A",
          "rank_interpretation": "Distance rank among mapped chains only; crystal packing and biological site assignment require separate review.",
          "role": "buffer/additive",
          "role_category": "incidental",
          "site_id": "PDB:6IIQ:LIG:H:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:A",
          "source_coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29"
        },
        {
          "Pfam_contacts_5A": "[{\"auth_asym_id\": \"B\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 4.8119, \"uniprot_position\": 17}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.1344, \"uniprot_position\": 19}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.4205, \"uniprot_position\": 22}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 4.6245, \"uniprot_position\": 23}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.0076, \"uniprot_position\": 25}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.2387, \"uniprot_position\": 48}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 2.7107, \"uniprot_position\": 51}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.208, \"uniprot_position\": 53}]",
          "biochemical_activity_inferred": 0,
          "ccd_id": "MLA",
          "chain_contacts_5A": "[{\"auth_asym_id\": \"B\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 4.8119, \"uniprot_position\": 17}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.1344, \"uniprot_position\": 19}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.4205, \"uniprot_position\": 22}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 4.6245, \"uniprot_position\": 23}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.0076, \"uniprot_position\": 25}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.2387, \"uniprot_position\": 48}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 2.7107, \"uniprot_position\": 51}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.208, \"uniprot_position\": 53}]",
          "chain_id": "PDB:6IIQ:CHAIN:B:UP:Q9Y3E1",
          "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "contact_class": "native_annotation_core_contact",
          "contact_distance_rank": 1,
          "core_contacts_5A": "[{\"auth_asym_id\": \"B\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 4.8119, \"uniprot_position\": 17}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.1344, \"uniprot_position\": 19}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.4205, \"uniprot_position\": 22}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 4.6245, \"uniprot_position\": 23}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.0076, \"uniprot_position\": 25}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.2387, \"uniprot_position\": 48}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 2.7107, \"uniprot_position\": 51}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.208, \"uniprot_position\": 53}]",
          "covalent_connection_ids": "[]",
          "cutoff_angstrom": 5.0,
          "domain_id": "UP:Q9Y3E1:PWWP1",
          "exact_pwwp_contact": true,
          "gene": "HDGFL3",
          "geometry_scope": "first deposited model; asymmetric unit; heavy atoms with occupancy >0; alternate locations retained; no symmetry expansion",
          "instance": {
            "alternate_locations": "[]",
            "auth_asym_ids": "[\"B\"]",
            "auth_seq_id": "101",
            "ccd_id": "MLA",
            "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
            "component_context": "nonpolymer_component",
            "contacted_polymer_partners": "[{\"description\": \"Hepatoma-derived growth factor-related protein 3\", \"entity_id\": \"1\", \"is_PWWP_family_protein\": true, \"label_asym_id\": \"B\", \"sequence_length\": 100, \"uniprot_ids\": [\"Q9Y3E1\"]}]",
            "covalent_connection_ids": "[]",
            "heavy_atom_row_count": 7,
            "ideal_CCD_SDF_is_source_pose": 0,
            "label_asym_id": "J",
            "label_seq_id": null,
            "ligand_instance_id": "PDB:6IIQ:LIG:J:MLA:101:.",
            "nearest_polypeptide_distance_angstrom": 2.7107,
            "nearest_polypeptide_label_asym_id": "B",
            "occupancy_max": 1.0,
            "occupancy_min": 1.0,
            "pdb_id": "6IIQ",
            "polypeptide_contact_residues_5A": "[{\"auth_asym_id\": \"B\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 4.8119, \"uniprot_position\": null}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.1344, \"uniprot_position\": null}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.4205, \"uniprot_position\": null}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 4.6245, \"uniprot_position\": null}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.0076, \"uniprot_position\": null}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.2387, \"uniprot_position\": null}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 2.7107, \"uniprot_position\": null}, {\"auth_asym_id\": \"B\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"B\", \"minimum_distance_angstrom\": 3.208, \"uniprot_position\": null}]",
            "pose_kind": "deposited_source_coordinates",
            "reference_model": "1",
            "source_coordinate_file": "Structures/HDGFL3__HUMAN__Q9Y3E1/Complexes/6IIQ/original.cif",
            "source_coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29",
            "unique_heavy_atom_names": 7
          },
          "ligand_instance_id": "PDB:6IIQ:LIG:J:MLA:101:.",
          "ligand_label_asym_id": "J",
          "minimum_Pfam_distance_angstrom": 2.7107,
          "minimum_chain_distance_angstrom": 2.7107,
          "minimum_core_distance_angstrom": 2.7107,
          "multiple_contacting_mapped_chains": 0,
          "pdb_id": "6IIQ",
          "protein_id": "UP:Q9Y3E1",
          "protein_label_asym_id": "B",
          "rank_interpretation": "Distance rank among mapped chains only; crystal packing and biological site assignment require separate review.",
          "role": "buffer/additive",
          "role_category": "incidental",
          "site_id": "PDB:6IIQ:LIG:J:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:B",
          "source_coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29"
        },
        {
          "Pfam_contacts_5A": "[{\"auth_asym_id\": \"C\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 4.6999, \"uniprot_position\": 17}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0263, \"uniprot_position\": 19}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 2.9806, \"uniprot_position\": 22}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 4.8118, \"uniprot_position\": 23}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0414, \"uniprot_position\": 25}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0847, \"uniprot_position\": 48}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 2.7529, \"uniprot_position\": 51}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.3646, \"uniprot_position\": 53}]",
          "biochemical_activity_inferred": 0,
          "ccd_id": "MLA",
          "chain_contacts_5A": "[{\"auth_asym_id\": \"C\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 4.6999, \"uniprot_position\": 17}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0263, \"uniprot_position\": 19}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 2.9806, \"uniprot_position\": 22}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 4.8118, \"uniprot_position\": 23}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0414, \"uniprot_position\": 25}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0847, \"uniprot_position\": 48}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 2.7529, \"uniprot_position\": 51}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.3646, \"uniprot_position\": 53}]",
          "chain_id": "PDB:6IIQ:CHAIN:C:UP:Q9Y3E1",
          "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "contact_class": "native_annotation_core_contact",
          "contact_distance_rank": 1,
          "core_contacts_5A": "[{\"auth_asym_id\": \"C\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 4.6999, \"uniprot_position\": 17}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0263, \"uniprot_position\": 19}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 2.9806, \"uniprot_position\": 22}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 4.8118, \"uniprot_position\": 23}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0414, \"uniprot_position\": 25}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0847, \"uniprot_position\": 48}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 2.7529, \"uniprot_position\": 51}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.3646, \"uniprot_position\": 53}]",
          "covalent_connection_ids": "[]",
          "cutoff_angstrom": 5.0,
          "domain_id": "UP:Q9Y3E1:PWWP1",
          "exact_pwwp_contact": true,
          "gene": "HDGFL3",
          "geometry_scope": "first deposited model; asymmetric unit; heavy atoms with occupancy >0; alternate locations retained; no symmetry expansion",
          "instance": {
            "alternate_locations": "[]",
            "auth_asym_ids": "[\"C\"]",
            "auth_seq_id": "101",
            "ccd_id": "MLA",
            "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
            "component_context": "nonpolymer_component",
            "contacted_polymer_partners": "[{\"description\": \"Hepatoma-derived growth factor-related protein 3\", \"entity_id\": \"1\", \"is_PWWP_family_protein\": true, \"label_asym_id\": \"C\", \"sequence_length\": 100, \"uniprot_ids\": [\"Q9Y3E1\"]}]",
            "covalent_connection_ids": "[]",
            "heavy_atom_row_count": 7,
            "ideal_CCD_SDF_is_source_pose": 0,
            "label_asym_id": "L",
            "label_seq_id": null,
            "ligand_instance_id": "PDB:6IIQ:LIG:L:MLA:101:.",
            "nearest_polypeptide_distance_angstrom": 2.7529,
            "nearest_polypeptide_label_asym_id": "C",
            "occupancy_max": 1.0,
            "occupancy_min": 1.0,
            "pdb_id": "6IIQ",
            "polypeptide_contact_residues_5A": "[{\"auth_asym_id\": \"C\", \"auth_seq_id\": \"17\", \"component\": \"ALA\", \"entity_position\": 18, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 4.6999, \"uniprot_position\": null}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"19\", \"component\": \"MET\", \"entity_position\": 20, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0263, \"uniprot_position\": null}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"22\", \"component\": \"TYR\", \"entity_position\": 23, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 2.9806, \"uniprot_position\": null}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"23\", \"component\": \"PRO\", \"entity_position\": 24, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 4.8118, \"uniprot_position\": null}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"25\", \"component\": \"TRP\", \"entity_position\": 26, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0414, \"uniprot_position\": null}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"48\", \"component\": \"PHE\", \"entity_position\": 49, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.0847, \"uniprot_position\": null}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"51\", \"component\": \"THR\", \"entity_position\": 52, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 2.7529, \"uniprot_position\": null}, {\"auth_asym_id\": \"C\", \"auth_seq_id\": \"53\", \"component\": \"GLU\", \"entity_position\": 54, \"label_asym_id\": \"C\", \"minimum_distance_angstrom\": 3.3646, \"uniprot_position\": null}]",
            "pose_kind": "deposited_source_coordinates",
            "reference_model": "1",
            "source_coordinate_file": "Structures/HDGFL3__HUMAN__Q9Y3E1/Complexes/6IIQ/original.cif",
            "source_coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29",
            "unique_heavy_atom_names": 7
          },
          "ligand_instance_id": "PDB:6IIQ:LIG:L:MLA:101:.",
          "ligand_label_asym_id": "L",
          "minimum_Pfam_distance_angstrom": 2.7529,
          "minimum_chain_distance_angstrom": 2.7529,
          "minimum_core_distance_angstrom": 2.7529,
          "multiple_contacting_mapped_chains": 0,
          "pdb_id": "6IIQ",
          "protein_id": "UP:Q9Y3E1",
          "protein_label_asym_id": "C",
          "rank_interpretation": "Distance rank among mapped chains only; crystal packing and biological site assignment require separate review.",
          "role": "buffer/additive",
          "role_category": "incidental",
          "site_id": "PDB:6IIQ:LIG:L:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:C",
          "source_coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29"
        }
      ],
      "context_assay_count": 0,
      "context_measured_count": 0,
      "context_bound_count": 1,
      "context_pdb_count": 1,
      "context_negative_count": 0,
      "context_is_probe": false,
      "context_bioactivity_only": false,
      "context_kind": "PWWP-proximal structure",
      "science": {
        "studied_compound": false,
        "measured_count": 0,
        "structural_research_ligand": false,
        "research_pdb_count": 0,
        "other_component": true,
        "component_site_count": 3,
        "verification_queue": false,
        "positive_direct_binder": false,
        "reported_probe": false,
        "reported_control": false,
        "cellular_activity": false,
        "protein_degradation": false,
        "bioactivity_only": false,
        "research_site_count": 0,
        "unknown_site_count": 0,
        "annotation_roles": [
          "components"
        ]
      },
      "science_label": "Other PDB component · not a studied ligand",
      "science_profile": {
        "annotation_roles": [
          "components"
        ],
        "cellular_activity": false,
        "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
        "compound_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
        "entity_kind": "chemical_identity",
        "identity_resolved": true,
        "measured_observation_count": 0,
        "name": "MALONIC ACID",
        "other_pdb_component": true,
        "other_site_count": 3,
        "positive_direct_binder": false,
        "primary_view": "components",
        "protein_degradation": false,
        "reported_control": false,
        "reported_probe": false,
        "rule": "Independent source observations + per-site coordinate role, not universal pharmacology",
        "source_observation_ids": [],
        "source_site_ids": [
          "PDB:6IIQ:LIG:H:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:A",
          "PDB:6IIQ:LIG:J:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:B",
          "PDB:6IIQ:LIG:L:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:C"
        ],
        "structural_research_ligand": false,
        "structural_research_site_count": 0,
        "studied_compound": false,
        "total_observation_count": 0,
        "uncertain_site_count": 0,
        "uncertainty": "Classification is evidence- and experiment-scoped; missing assays do not prove nonbinding.",
        "verification_queue": false,
        "verification_status": "source_scoped_mixed"
      },
      "science_site_roles": {
        "PDB:6IIQ:LIG:H:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:A": {
          "ccd_url": "https://www.rcsb.org/ligand/MLA",
          "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "compound_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "contact_class": "native_annotation_core_contact",
          "coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29",
          "domain_id": "UP:Q9Y3E1:PWWP1",
          "exact_pwwp_contact": true,
          "ligand_instance_id": "PDB:6IIQ:LIG:H:MLA:101:.",
          "observed_other_component": true,
          "pdb_id": "6IIQ",
          "protein_id": "UP:Q9Y3E1",
          "role_code": "buffer_component",
          "role_group": "other_component",
          "rule": "Phase5 exact deposited site role, measured heavy-atom contacts and native-domain scope",
          "site_id": "PDB:6IIQ:LIG:H:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:A",
          "source_role": "buffer/additive",
          "source_url": "https://www.rcsb.org/structure/6IIQ",
          "structural_research_ligand": false,
          "uncertainty": "Role is source-annotated; deposited proximity alone does not establish solution binding or biological activity.",
          "verification_status": "phase5_derived_deposited_geometry"
        },
        "PDB:6IIQ:LIG:J:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:B": {
          "ccd_url": "https://www.rcsb.org/ligand/MLA",
          "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "compound_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "contact_class": "native_annotation_core_contact",
          "coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29",
          "domain_id": "UP:Q9Y3E1:PWWP1",
          "exact_pwwp_contact": true,
          "ligand_instance_id": "PDB:6IIQ:LIG:J:MLA:101:.",
          "observed_other_component": true,
          "pdb_id": "6IIQ",
          "protein_id": "UP:Q9Y3E1",
          "role_code": "buffer_component",
          "role_group": "other_component",
          "rule": "Phase5 exact deposited site role, measured heavy-atom contacts and native-domain scope",
          "site_id": "PDB:6IIQ:LIG:J:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:B",
          "source_role": "buffer/additive",
          "source_url": "https://www.rcsb.org/structure/6IIQ",
          "structural_research_ligand": false,
          "uncertainty": "Role is source-annotated; deposited proximity alone does not establish solution binding or biological activity.",
          "verification_status": "phase5_derived_deposited_geometry"
        },
        "PDB:6IIQ:LIG:L:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:C": {
          "ccd_url": "https://www.rcsb.org/ligand/MLA",
          "chemical_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "compound_id": "INCHIKEY:OFOBLEOULBTSOW-UHFFFAOYSA-N",
          "contact_class": "native_annotation_core_contact",
          "coordinate_sha256": "eb0a6ebdd81c2989484b2307da3a4577e656a20edfafcc60f681a5ac34684b29",
          "domain_id": "UP:Q9Y3E1:PWWP1",
          "exact_pwwp_contact": true,
          "ligand_instance_id": "PDB:6IIQ:LIG:L:MLA:101:.",
          "observed_other_component": true,
          "pdb_id": "6IIQ",
          "protein_id": "UP:Q9Y3E1",
          "role_code": "buffer_component",
          "role_group": "other_component",
          "rule": "Phase5 exact deposited site role, measured heavy-atom contacts and native-domain scope",
          "site_id": "PDB:6IIQ:LIG:L:MLA:101:.:SITE:UP:Q9Y3E1:PWWP1:C",
          "source_role": "buffer/additive",
          "source_url": "https://www.rcsb.org/structure/6IIQ",
          "structural_research_ligand": false,
          "uncertainty": "Role is source-annotated; deposited proximity alone does not establish solution binding or biological activity.",
          "verification_status": "phase5_derived_deposited_geometry"
        }
      },
      "science_assay_roles": {},
      "example": null,
      "matched_observations": [],
      "matched_assay_count": 0
    }
  ]
}