data_8JLR # _model_server_result.job_id m0v82zGNUfYy-begj4ILbw _model_server_result.datetime_utc '2025-07-17 10:02:41' _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 8jlr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":401}' # _entry.id 8JLR # _exptl.entry_id 8JLR _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 329.433 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1~{S},3~{R})-3-(1-adamantyl)-1-(aminomethyl)-3,4-dihydro-1~{H}-isochromene-5,6-diol _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 8JLR _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8JLR _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _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 6 _struct_asym.id F _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 C SG CYS 227 R CYS 96 1_555 C SG CYS 313 R CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 E SG CYS 22 S CYS 22 1_555 E SG CYS 96 S CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 E SG CYS 159 S CYS 159 1_555 E SG CYS 229 S CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C20 H27 N O3' _chem_comp.formula_weight 329.433 _chem_comp.id VRK _chem_comp.mon_nstd_flag . _chem_comp.name (1~{S},3~{R})-3-(1-adamantyl)-1-(aminomethyl)-3,4-dihydro-1~{H}-isochromene-5,6-diol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C18 C17 VRK doub 374 n y C18 C19 VRK sing 375 n y C17 C16 VRK sing 376 n y C1 N1 VRK sing 377 n n C1 C2 VRK sing 378 n n O2 C19 VRK sing 379 n n C19 C20 VRK doub 380 n y C16 C2 VRK sing 381 n n C16 C15 VRK doub 382 n y C2 O1 VRK sing 383 n n C20 C15 VRK sing 384 n y C20 O3 VRK sing 385 n n C15 C14 VRK sing 386 n n O1 C3 VRK sing 387 n n C14 C3 VRK sing 388 n n C3 C4 VRK sing 389 n n C12 C4 VRK sing 390 n n C12 C10 VRK sing 391 n n C4 C13 VRK sing 392 n n C4 C5 VRK sing 393 n n C13 C8 VRK sing 394 n n C10 C9 VRK sing 395 n n C10 C11 VRK sing 396 n n C9 C8 VRK sing 397 n n C8 C7 VRK sing 398 n n C5 C6 VRK sing 399 n n C11 C6 VRK sing 400 n n C6 C7 VRK sing 401 n n C1 H1 VRK sing 402 n n C1 H2 VRK sing 403 n n O2 H3 VRK sing 404 n n C5 H4 VRK sing 405 n n C5 H5 VRK sing 406 n n C6 H6 VRK sing 407 n n C7 H7 VRK sing 408 n n C7 H8 VRK sing 409 n n C9 H9 VRK sing 410 n n C9 H10 VRK sing 411 n n C10 H11 VRK sing 412 n n C11 H12 VRK sing 413 n n C11 H13 VRK sing 414 n n C2 H14 VRK sing 415 n n C3 H15 VRK sing 416 n n C8 H16 VRK sing 417 n n C12 H17 VRK sing 418 n n C12 H18 VRK sing 419 n n C13 H19 VRK sing 420 n n C13 H20 VRK sing 421 n n C14 H21 VRK sing 422 n n C14 H22 VRK sing 423 n n C17 H23 VRK sing 424 n n C18 H24 VRK sing 425 n n N1 H25 VRK sing 426 n n N1 H26 VRK sing 427 n n O3 H28 VRK sing 428 n n # _atom_sites.entry_id 8JLR _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 # _pdbx_nonpoly_scheme.asym_id F _pdbx_nonpoly_scheme.entity_id 6 _pdbx_nonpoly_scheme.mon_id VRK _pdbx_nonpoly_scheme.pdb_strand_id R _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 401 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id VRK _pdbx_nonpoly_scheme.auth_mon_id A77 _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C C1 VRK . . . F 6 109.456 106.022 138.57 1 29.01 ? C1 VRK 401 R 1 HETATM 2 O O2 VRK . . . F 6 114.103 110.446 138.466 1 29.01 ? O2 VRK 401 R 1 HETATM 3 C C4 VRK . . . F 6 110.967 105.499 143.023 1 29.01 ? C4 VRK 401 R 1 HETATM 4 C C5 VRK . . . F 6 110.273 106.137 144.231 1 29.01 ? C5 VRK 401 R 1 HETATM 5 C C6 VRK . . . F 6 110.197 105.161 145.404 1 29.01 ? C6 VRK 401 R 1 HETATM 6 C C7 VRK . . . F 6 111.607 104.755 145.807 1 29.01 ? C7 VRK 401 R 1 HETATM 7 C C9 VRK . . . F 6 111.54 102.858 144.208 1 29.01 ? C9 VRK 401 R 1 HETATM 8 C C10 VRK . . . F 6 110.127 103.259 143.808 1 29.01 ? C10 VRK 401 R 1 HETATM 9 C C11 VRK . . . F 6 109.42 103.921 144.985 1 29.01 ? C11 VRK 401 R 1 HETATM 10 C C2 VRK . . . F 6 110.131 106.683 139.744 1 29.01 ? C2 VRK 401 R 1 HETATM 11 C C3 VRK . . . F 6 110.959 106.457 141.857 1 29.01 ? C3 VRK 401 R 1 HETATM 12 C C8 VRK . . . F 6 112.309 104.105 144.62 1 29.01 ? C8 VRK 401 R 1 HETATM 13 C C12 VRK . . . F 6 110.195 104.235 142.635 1 29.01 ? C12 VRK 401 R 1 HETATM 14 C C13 VRK . . . F 6 112.378 105.084 143.445 1 29.01 ? C13 VRK 401 R 1 HETATM 15 C C14 VRK . . . F 6 112.107 107.43 141.68 1 29.01 ? C14 VRK 401 R 1 HETATM 16 C C15 VRK . . . F 6 112.124 108.045 140.305 1 29.01 ? C15 VRK 401 R 1 HETATM 17 C C16 VRK . . . F 6 111.187 107.679 139.356 1 29.01 ? C16 VRK 401 R 1 HETATM 18 C C17 VRK . . . F 6 111.22 108.248 138.093 1 29.01 ? C17 VRK 401 R 1 HETATM 19 C C18 VRK . . . F 6 112.182 109.178 137.769 1 29.01 ? C18 VRK 401 R 1 HETATM 20 C C19 VRK . . . F 6 113.119 109.545 138.709 1 29.01 ? C19 VRK 401 R 1 HETATM 21 C C20 VRK . . . F 6 113.09 108.99 139.962 1 29.01 ? C20 VRK 401 R 1 HETATM 22 N N1 VRK . . . F 6 108.034 106.032 138.867 1 29.01 ? N1 VRK 401 R 1 HETATM 23 O O1 VRK . . . F 6 110.671 105.745 140.66 1 29.01 ? O1 VRK 401 R 1 HETATM 24 O O3 VRK . . . F 6 114.012 109.355 140.888 1 29.01 ? O3 VRK 401 R 1 # _model_server_stats.io_time_ms 55 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 236 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 24 #