data_5UKK # _model_server_result.job_id stoe-Rb8KnPNMi0zF9jWsQ _model_server_result.datetime_utc '2024-11-28 11:15:33' _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 5ukk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":702}' # _entry.id 5UKK # _exptl.entry_id 5UKK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 463.501 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-[(3S,4R)-3-{[(2H-1,3-benzodioxol-5-yl)oxy]methyl}piperidin-4-yl]-2-fluoro-N-[(pyridin-2-yl)methyl]benzamide _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 92.81 _cell.angle_gamma 90 _cell.entry_id 5UKK _cell.length_a 113.123 _cell.length_b 62.423 _cell.length_c 102.035 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5UKK _symmetry.cell_setting ? _symmetry.Int_Tables_number 3 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,G,H _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 5 _struct_asym.id E _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 metalc ? metalc1 A O HIS 319 A HIS 348 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.804 ? metalc ? metalc2 A O GLU 331 A GLU 360 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc3 A O GLN 334 A GLN 363 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc4 A O VAL 337 A VAL 366 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? # _chem_comp.formula 'C26 H26 F N3 O4' _chem_comp.formula_weight 463.501 _chem_comp.id 8DJ _chem_comp.mon_nstd_flag . _chem_comp.name 5-[(3S,4R)-3-{[(2H-1,3-benzodioxol-5-yl)oxy]methyl}piperidin-4-yl]-2-fluoro-N-[(pyridin-2-yl)methyl]benzamide _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 C11 C12 8DJ doub 1 n y C11 C10 8DJ sing 2 n y C12 N1 8DJ sing 3 n y C10 C9 8DJ doub 4 n y N1 C8 8DJ doub 5 n y C9 C8 8DJ sing 6 n y C8 C7 8DJ sing 7 n n C7 N 8DJ sing 8 n n N C6 8DJ sing 9 n n O C6 8DJ doub 10 n n C6 C5 8DJ sing 11 n n F C 8DJ sing 12 n n C5 C 8DJ doub 13 n y C5 C4 8DJ sing 14 n y C C1 8DJ sing 15 n y C4 C3 8DJ doub 16 n y C1 C2 8DJ doub 17 n y O3 C23 8DJ sing 18 n n O3 C24 8DJ sing 19 n n C3 C2 8DJ sing 20 n y C3 C13 8DJ sing 21 n n C18 C17 8DJ sing 22 n n C18 O1 8DJ sing 23 n n C25 C24 8DJ doub 24 n y C25 C19 8DJ sing 25 n y C23 O2 8DJ sing 26 n n C24 C22 8DJ sing 27 n y C17 C13 8DJ sing 28 n n C17 C16 8DJ sing 29 n n C13 C14 8DJ sing 30 n n O1 C19 8DJ sing 31 n n C19 C20 8DJ doub 32 n y C14 C15 8DJ sing 33 n n C22 O2 8DJ sing 34 n n C22 C21 8DJ doub 35 n y C16 N2 8DJ sing 36 n n N2 C15 8DJ sing 37 n n C20 C21 8DJ sing 38 n y N H1 8DJ sing 39 n n C7 H2 8DJ sing 40 n n C7 H3 8DJ sing 41 n n C12 H4 8DJ sing 42 n n C11 H5 8DJ sing 43 n n C10 H6 8DJ sing 44 n n C9 H7 8DJ sing 45 n n C4 H8 8DJ sing 46 n n C2 H9 8DJ sing 47 n n C1 H10 8DJ sing 48 n n C13 H11 8DJ sing 49 n n C17 H12 8DJ sing 50 n n C16 H13 8DJ sing 51 n n C16 H14 8DJ sing 52 n n N2 H15 8DJ sing 53 n n C15 H17 8DJ sing 54 n n C15 H18 8DJ sing 55 n n C14 H19 8DJ sing 56 n n C14 H20 8DJ sing 57 n n C18 H21 8DJ sing 58 n n C18 H22 8DJ sing 59 n n C25 H23 8DJ sing 60 n n C23 H24 8DJ sing 61 n n C21 H25 8DJ sing 62 n n C20 H26 8DJ sing 63 n n C23 H16 8DJ sing 64 n n # _atom_sites.entry_id 5UKK _atom_sites.fract_transf_matrix[1][1] 0.00884 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000433 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01602 _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] 0.009812 _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 D 4 MG A 1 701 1 MG MG . E 5 8DJ A 1 702 1 8DJ NNE . F 6 HOH A 1 801 5 HOH HOH . F 6 HOH A 2 802 1 HOH HOH . F 6 HOH A 3 803 33 HOH HOH . F 6 HOH A 4 804 24 HOH HOH . F 6 HOH A 5 805 29 HOH HOH . F 6 HOH A 6 806 35 HOH HOH . F 6 HOH A 7 807 13 HOH HOH . F 6 HOH A 8 808 34 HOH HOH . F 6 HOH A 9 809 10 HOH HOH . F 6 HOH A 10 810 12 HOH HOH . F 6 HOH A 11 811 9 HOH HOH . F 6 HOH A 12 812 4 HOH HOH . F 6 HOH A 13 813 27 HOH HOH . F 6 HOH A 14 814 31 HOH HOH . F 6 HOH A 15 815 23 HOH HOH . F 6 HOH A 16 816 30 HOH HOH . F 6 HOH A 17 817 28 HOH HOH . F 6 HOH A 18 818 6 HOH HOH . F 6 HOH A 19 819 14 HOH HOH . F 6 HOH A 20 820 18 HOH HOH . F 6 HOH A 21 821 19 HOH HOH . F 6 HOH A 22 822 32 HOH HOH . F 6 HOH A 23 823 3 HOH HOH . F 6 HOH A 24 824 8 HOH HOH . F 6 HOH A 25 825 11 HOH HOH . F 6 HOH A 26 826 21 HOH HOH . F 6 HOH A 27 827 20 HOH HOH . G 6 HOH B 1 401 26 HOH HOH . G 6 HOH B 2 402 25 HOH HOH . G 6 HOH B 3 403 43 HOH HOH . G 6 HOH B 4 404 37 HOH HOH . G 6 HOH B 5 405 7 HOH HOH . G 6 HOH B 6 406 17 HOH HOH . G 6 HOH B 7 407 16 HOH HOH . G 6 HOH B 8 408 36 HOH HOH . G 6 HOH B 9 409 40 HOH HOH . G 6 HOH B 10 410 39 HOH HOH . G 6 HOH B 11 411 41 HOH HOH . G 6 HOH B 12 412 38 HOH HOH . G 6 HOH B 13 413 22 HOH HOH . G 6 HOH B 14 414 2 HOH HOH . G 6 HOH B 15 415 15 HOH HOH . H 6 HOH G 1 101 42 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 O O 8DJ . . . E 5 109.302 35.525 73.856 1 71.58 ? O 8DJ 702 A 1 HETATM 2 C C6 8DJ . . . E 5 110.46 35.846 74.117 1 73.07 ? C6 8DJ 702 A 1 HETATM 3 N N 8DJ . . . E 5 111.115 36.83 73.5 1 77.14 ? N 8DJ 702 A 1 HETATM 4 C C7 8DJ . . . E 5 110.485 37.712 72.546 1 81.59 ? C7 8DJ 702 A 1 HETATM 5 C C8 8DJ . . . E 5 110.433 37.095 71.172 1 85.94 ? C8 8DJ 702 A 1 HETATM 6 N N1 8DJ . . . E 5 109.443 37.518 70.336 1 89.76 ? N1 8DJ 702 A 1 HETATM 7 C C12 8DJ . . . E 5 109.316 37.04 69.091 1 87.19 ? C12 8DJ 702 A 1 HETATM 8 C C11 8DJ . . . E 5 110.226 36.097 68.63 1 87.27 ? C11 8DJ 702 A 1 HETATM 9 C C10 8DJ . . . E 5 111.258 35.647 69.454 1 86.48 ? C10 8DJ 702 A 1 HETATM 10 C C9 8DJ . . . E 5 111.371 36.145 70.745 1 85.43 ? C9 8DJ 702 A 1 HETATM 11 C C5 8DJ . . . E 5 111.152 35.181 75.265 1 69.56 ? C5 8DJ 702 A 1 HETATM 12 C C 8DJ . . . E 5 111.189 33.81 75.39 1 69 ? C 8DJ 702 A 1 HETATM 13 F F 8DJ . . . E 5 110.616 33.042 74.449 1 68.7 ? F 8DJ 702 A 1 HETATM 14 C C4 8DJ . . . E 5 111.73 35.988 76.239 1 68.08 ? C4 8DJ 702 A 1 HETATM 15 C C3 8DJ . . . E 5 112.373 35.446 77.353 1 66.29 ? C3 8DJ 702 A 1 HETATM 16 C C2 8DJ . . . E 5 112.414 34.055 77.472 1 67.01 ? C2 8DJ 702 A 1 HETATM 17 C C1 8DJ . . . E 5 111.821 33.243 76.498 1 67.86 ? C1 8DJ 702 A 1 HETATM 18 C C13 8DJ . . . E 5 113.012 36.319 78.386 1 63.95 ? C13 8DJ 702 A 1 HETATM 19 C C17 8DJ . . . E 5 114.344 36.928 77.921 1 62.79 ? C17 8DJ 702 A 1 HETATM 20 C C16 8DJ . . . E 5 114.933 37.723 79.067 1 61.88 ? C16 8DJ 702 A 1 HETATM 21 N N2 8DJ . . . E 5 114.016 38.833 79.351 1 62.41 ? N2 8DJ 702 A 1 HETATM 22 C C15 8DJ . . . E 5 112.712 38.368 79.838 1 62.58 ? C15 8DJ 702 A 1 HETATM 23 C C14 8DJ . . . E 5 112.069 37.45 78.821 1 63.05 ? C14 8DJ 702 A 1 HETATM 24 C C18 8DJ . . . E 5 115.411 35.952 77.44 1 62.6 ? C18 8DJ 702 A 1 HETATM 25 O O1 8DJ . . . E 5 115.691 35.01 78.45 1 63.71 ? O1 8DJ 702 A 1 HETATM 26 C C19 8DJ . . . E 5 116.838 34.266 78.584 1 64.81 ? C19 8DJ 702 A 1 HETATM 27 C C25 8DJ . . . E 5 117.861 34.214 77.634 1 64.11 ? C25 8DJ 702 A 1 HETATM 28 C C24 8DJ . . . E 5 118.957 33.412 77.918 1 64.39 ? C24 8DJ 702 A 1 HETATM 29 O O3 8DJ . . . E 5 120.067 33.202 77.167 1 66.17 ? O3 8DJ 702 A 1 HETATM 30 C C23 8DJ . . . E 5 120.962 32.338 77.883 1 64.16 ? C23 8DJ 702 A 1 HETATM 31 O O2 8DJ . . . E 5 120.224 31.978 79.059 1 64.19 ? O2 8DJ 702 A 1 HETATM 32 C C22 8DJ . . . E 5 119.057 32.678 79.054 1 64.15 ? C22 8DJ 702 A 1 HETATM 33 C C21 8DJ . . . E 5 118.061 32.711 80.009 1 64.97 ? C21 8DJ 702 A 1 HETATM 34 C C20 8DJ . . . E 5 116.945 33.512 79.76 1 65.1 ? C20 8DJ 702 A 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 34 #