data_3KOO # _model_server_result.job_id XpBcHl1s2BzDvI1Vda6ukQ _model_server_result.datetime_utc '2024-12-27 01:17:20' _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 3koo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":556}' # _entry.id 3KOO # _exptl.entry_id 3KOO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 381.256 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(2,4-dichlorobenzyl)-4-(pyrimidin-2-yloxy)piperidine-1-carboxamide _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 120 _cell.entry_id 3KOO _cell.length_a 91.765 _cell.length_b 91.765 _cell.length_c 242.516 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KOO _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 11_655 -x+y+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 91.765 0 121.258 # _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 # _chem_comp.formula 'C17 H18 Cl2 N4 O2' _chem_comp.formula_weight 381.256 _chem_comp.id 24D _chem_comp.mon_nstd_flag . _chem_comp.name N-(2,4-dichlorobenzyl)-4-(pyrimidin-2-yloxy)piperidine-1-carboxamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '4-(Pyrimidin-2-yloxy)-piperidine-1-carboxylic acid 2,4-dichloro-benzylamide' # 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 CL1 C2 24D sing 1 n n C2 C3 24D doub 2 n y C2 C25 24D sing 3 n y C3 C4 24D sing 4 n y C4 C5 24D doub 5 n y C5 C6 24D sing 6 n n C5 C23 24D sing 7 n y C6 N7 24D sing 8 n n N7 C8 24D sing 9 n n C8 O9 24D doub 10 n n C8 N10 24D sing 11 n n N10 C11 24D sing 12 n n N10 C15 24D sing 13 n n C11 C12 24D sing 14 n n C12 C13 24D sing 15 n n C13 C14 24D sing 16 n n C13 O16 24D sing 17 n n C14 C15 24D sing 18 n n O16 C17 24D sing 19 n n C17 N18 24D doub 20 n y C17 N22 24D sing 21 n y N18 C19 24D sing 22 n y C19 C20 24D doub 23 n y C20 C21 24D sing 24 n y C21 N22 24D doub 25 n y C23 CL24 24D sing 26 n n C23 C25 24D doub 27 n y C3 H3 24D sing 28 n n C4 H4 24D sing 29 n n C6 H6 24D sing 30 n n C6 H6A 24D sing 31 n n N7 HN7 24D sing 32 n n C11 H11 24D sing 33 n n C11 H11A 24D sing 34 n n C12 H12 24D sing 35 n n C12 H12A 24D sing 36 n n C13 H13 24D sing 37 n n C14 H14 24D sing 38 n n C14 H14A 24D sing 39 n n C15 H15 24D sing 40 n n C15 H15A 24D sing 41 n n C19 H19 24D sing 42 n n C20 H20 24D sing 43 n n C21 H21 24D sing 44 n n C25 H25 24D sing 45 n n # _atom_sites.entry_id 3KOO _atom_sites.fract_transf_matrix[1][1] 0.010897 _atom_sites.fract_transf_matrix[1][2] 0.006292 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012583 _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] 0.004123 _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 24D A 1 556 1 24D 24D . C 3 HOH A 1 557 1 HOH TIP . C 3 HOH A 2 558 2 HOH TIP . C 3 HOH A 3 559 3 HOH TIP . C 3 HOH A 4 560 4 HOH TIP . C 3 HOH A 5 561 5 HOH TIP . C 3 HOH A 6 562 6 HOH TIP . C 3 HOH A 7 563 7 HOH TIP . C 3 HOH A 8 564 8 HOH TIP . C 3 HOH A 9 566 10 HOH TIP . C 3 HOH A 10 567 11 HOH TIP . C 3 HOH A 11 568 12 HOH TIP . C 3 HOH A 12 569 13 HOH TIP . C 3 HOH A 13 571 15 HOH TIP . C 3 HOH A 14 572 16 HOH TIP . C 3 HOH A 15 573 17 HOH TIP . C 3 HOH A 16 575 19 HOH TIP . C 3 HOH A 17 576 20 HOH TIP . C 3 HOH A 18 577 21 HOH TIP . C 3 HOH A 19 578 22 HOH TIP . C 3 HOH A 20 579 23 HOH TIP . C 3 HOH A 21 580 24 HOH TIP . C 3 HOH A 22 581 25 HOH TIP . C 3 HOH A 23 582 26 HOH TIP . C 3 HOH A 24 583 27 HOH TIP . C 3 HOH A 25 584 28 HOH TIP . C 3 HOH A 26 585 29 HOH TIP . C 3 HOH A 27 586 30 HOH TIP . C 3 HOH A 28 587 31 HOH TIP . # 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 CL CL1 24D . . . B 2 75.801 -8.422 71.504 1 88.81 ? CL1 24D 556 A 1 HETATM 2 C C2 24D . . . B 2 75.126 -8.805 69.935 1 80.64 ? C2 24D 556 A 1 HETATM 3 C C3 24D . . . B 2 75.218 -7.883 68.899 1 75.41 ? C3 24D 556 A 1 HETATM 4 C C4 24D . . . B 2 74.684 -8.172 67.647 1 77.97 ? C4 24D 556 A 1 HETATM 5 C C5 24D . . . B 2 74.048 -9.379 67.41 1 72.79 ? C5 24D 556 A 1 HETATM 6 C C6 24D . . . B 2 73.459 -9.749 66.071 1 67.13 ? C6 24D 556 A 1 HETATM 7 N N7 24D . . . B 2 73.558 -8.637 65.125 1 69 ? N7 24D 556 A 1 HETATM 8 C C8 24D . . . B 2 74.688 -8.502 64.416 1 64.87 ? C8 24D 556 A 1 HETATM 9 O O9 24D . . . B 2 75.584 -9.284 64.577 1 67.54 ? O9 24D 556 A 1 HETATM 10 N N10 24D . . . B 2 74.841 -7.527 63.52 1 67.32 ? N10 24D 556 A 1 HETATM 11 C C11 24D . . . B 2 76.105 -7.406 62.777 1 70.56 ? C11 24D 556 A 1 HETATM 12 C C12 24D . . . B 2 75.792 -7.107 61.306 1 67.64 ? C12 24D 556 A 1 HETATM 13 C C13 24D . . . B 2 74.826 -5.914 61.187 1 73.84 ? C13 24D 556 A 1 HETATM 14 C C14 24D . . . B 2 74.376 -5.37 62.547 1 69.42 ? C14 24D 556 A 1 HETATM 15 C C15 24D . . . B 2 73.769 -6.555 63.301 1 68.36 ? C15 24D 556 A 1 HETATM 16 O O16 24D . . . B 2 75.426 -4.866 60.415 1 84.22 ? O16 24D 556 A 1 HETATM 17 C C17 24D . . . B 2 76.487 -4.148 60.86 1 73.44 ? C17 24D 556 A 1 HETATM 18 N N18 24D . . . B 2 77.235 -4.594 61.857 1 73.68 ? N18 24D 556 A 1 HETATM 19 C C19 24D . . . B 2 78.27 -3.897 62.282 1 76.44 ? C19 24D 556 A 1 HETATM 20 C C20 24D . . . B 2 78.554 -2.695 61.653 1 80.13 ? C20 24D 556 A 1 HETATM 21 C C21 24D . . . B 2 77.757 -2.256 60.606 1 73.45 ? C21 24D 556 A 1 HETATM 22 N N22 24D . . . B 2 76.74 -3.009 60.237 1 71.16 ? N22 24D 556 A 1 HETATM 23 C C23 24D . . . B 2 73.956 -10.293 68.429 1 76.76 ? C23 24D 556 A 1 HETATM 24 CL CL24 24D . . . B 2 73.147 -11.779 68.041 1 86.32 ? CL24 24D 556 A 1 HETATM 25 C C25 24D . . . B 2 74.49 -10.02 69.691 1 79.05 ? C25 24D 556 A 1 # _model_server_stats.io_time_ms 78 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #