data_9JDV # _model_server_result.job_id ykeCY4gPzYhW7LH3cFEUaA _model_server_result.datetime_utc '2025-07-30 12:45:47' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 9jdv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 9JDV # _exptl.entry_id 9JDV _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 168.11 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'URIC ACID' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 49 A CYS 49 1_555 A SG CYS 116 A CYS 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 88 A CYS 88 1_555 A SG CYS 139 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? # _chem_comp.formula 'C5 H4 N4 O3' _chem_comp.formula_weight 168.11 _chem_comp.id URC _chem_comp.mon_nstd_flag . _chem_comp.name 'URIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 7,9-DIHYDRO-1H-PURINE-2,6,8(3H)-TRIONE # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag N1 C2 URC sing 358 n y N1 C6 URC sing 359 n y N1 HN1 URC sing 360 n n C2 N3 URC sing 361 n y C2 O11 URC doub 362 n n C6 C5 URC sing 363 n y C6 O13 URC doub 364 n n N3 C4 URC sing 365 n y N3 HN3 URC sing 366 n n C4 C5 URC doub 367 n y C4 N9 URC sing 368 n y C5 N7 URC sing 369 n y N9 C8 URC sing 370 n y N9 HN9 URC sing 371 n n N7 C8 URC sing 372 n y N7 HN7 URC sing 373 n n C8 O24 URC doub 374 n n # _atom_sites.entry_id 9JDV _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 1 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 URC A 1 601 601 URC LIG . C 3 HOH A 1 701 3 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N1 URC . . . B 2 82.486 92.157 92.305 1 116.27 ? N1 URC 601 A 1 HETATM 2 C C2 URC . . . B 2 81.051 91.902 92.037 1 116.27 ? C2 URC 601 A 1 HETATM 3 C C6 URC . . . B 2 83.061 93.457 92.017 1 116.27 ? C6 URC 601 A 1 HETATM 4 N N3 URC . . . B 2 80.196 92.976 91.474 1 116.27 ? N3 URC 601 A 1 HETATM 5 O O11 URC . . . B 2 80.585 90.838 92.274 1 116.27 ? O11 URC 601 A 1 HETATM 6 C C4 URC . . . B 2 80.768 94.295 91.18 1 116.27 ? C4 URC 601 A 1 HETATM 7 C C5 URC . . . B 2 82.197 94.552 91.444 1 116.27 ? C5 URC 601 A 1 HETATM 8 N N9 URC . . . B 2 80.186 95.517 90.634 1 116.27 ? N9 URC 601 A 1 HETATM 9 O O13 URC . . . B 2 84.208 93.66 92.23 1 116.27 ? O13 URC 601 A 1 HETATM 10 N N7 URC . . . B 2 82.486 95.93 91.061 1 116.27 ? N7 URC 601 A 1 HETATM 11 C C8 URC . . . B 2 81.244 96.531 90.559 1 116.27 ? C8 URC 601 A 1 HETATM 12 O O24 URC . . . B 2 81.119 97.64 90.162 1 116.27 ? O24 URC 601 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 12 #