data_5UKM # _model_server_result.job_id 4nPkG2NuE4UnRZ2MNo72-A _model_server_result.datetime_utc '2024-11-04 23:02:33' _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 5ukm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":701}' # _entry.id 5UKM # _exptl.entry_id 5UKM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 452.478 _entity.id 4 _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-[(1H-pyrazol-5-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 115.46 _cell.angle_gamma 90 _cell.entry_id 5UKM _cell.length_a 189.012 _cell.length_b 74.15 _cell.length_c 123.175 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5UKM _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 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 4 _struct_asym.id D _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 covale ? covale1 C C PHE 67 G PHE 67 1_555 F N CMT . G CMT 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? metalc ? metalc1 A O HIS 348 A HIS 348 1_555 E MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? metalc ? metalc2 A O GLU 360 A GLU 360 1_555 E MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.808 ? metalc ? metalc3 A O GLN 363 A GLN 363 1_555 E MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? metalc ? metalc4 A O VAL 366 A VAL 366 1_555 E MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? # _chem_comp.formula 'C24 H25 F N4 O4' _chem_comp.formula_weight 452.478 _chem_comp.id T0E _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-[(1H-pyrazol-5-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 N3 C13 T0E sing 306 n n N3 C14 T0E sing 307 n n C13 C12 T0E sing 308 n n C14 C15 T0E sing 309 n n C12 C11 T0E sing 310 n n C15 C16 T0E sing 311 n n C15 C11 T0E sing 312 n n C18 C19 T0E doub 313 n y C18 C17 T0E sing 314 n y C19 C20 T0E sing 315 n y O1 C16 T0E sing 316 n n O1 C17 T0E sing 317 n n C11 C3 T0E sing 318 n n C17 C23 T0E doub 319 n y C20 O2 T0E sing 320 n n C20 C22 T0E doub 321 n y O2 C21 T0E sing 322 n n C23 C22 T0E sing 323 n y C22 O3 T0E sing 324 n n C21 O3 T0E sing 325 n n C3 C4 T0E doub 326 n y C3 C2 T0E sing 327 n y C4 C5 T0E sing 328 n y C2 C1 T0E doub 329 n y C5 C6 T0E sing 330 n n C5 C T0E doub 331 n y C1 C T0E sing 332 n y N C7 T0E sing 333 n n N C6 T0E sing 334 n n C7 C8 T0E sing 335 n n C6 O T0E doub 336 n n C F T0E sing 337 n n N2 C8 T0E sing 338 n y N2 N1 T0E sing 339 n y C8 C9 T0E doub 340 n y N1 C10 T0E doub 341 n y C9 C10 T0E sing 342 n y N H1 T0E sing 343 n n C7 H2 T0E sing 344 n n C7 H3 T0E sing 345 n n N2 H4 T0E sing 346 n n C10 H5 T0E sing 347 n n C9 H6 T0E sing 348 n n C4 H7 T0E sing 349 n n C2 H8 T0E sing 350 n n C1 H9 T0E sing 351 n n C11 H10 T0E sing 352 n n C15 H11 T0E sing 353 n n C14 H12 T0E sing 354 n n C14 H13 T0E sing 355 n n N3 H14 T0E sing 356 n n C13 H16 T0E sing 357 n n C13 H17 T0E sing 358 n n C12 H18 T0E sing 359 n n C12 H19 T0E sing 360 n n C16 H20 T0E sing 361 n n C16 H21 T0E sing 362 n n C23 H22 T0E sing 363 n n C21 H23 T0E sing 364 n n C19 H24 T0E sing 365 n n C18 H25 T0E sing 366 n n C21 H15 T0E sing 367 n n # _atom_sites.entry_id 5UKM _atom_sites.fract_transf_matrix[1][1] 0.005291 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002519 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013486 _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] 0.008992 _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 T0E A 1 701 1 T0E T0E . E 5 MG A 1 702 1 MG MG . F 6 CMT G 1 101 68 CMT CMT . G 7 HOH A 1 801 3 HOH HOH . G 7 HOH A 2 802 16 HOH HOH . G 7 HOH A 3 803 4 HOH HOH . G 7 HOH A 4 804 2 HOH HOH . G 7 HOH A 5 805 5 HOH HOH . G 7 HOH A 6 806 17 HOH HOH . G 7 HOH A 7 807 21 HOH HOH . G 7 HOH A 8 808 7 HOH HOH . G 7 HOH A 9 809 6 HOH HOH . H 7 HOH B 1 401 22 HOH HOH . H 7 HOH B 2 402 9 HOH HOH . H 7 HOH B 3 403 26 HOH HOH . H 7 HOH B 4 404 15 HOH HOH . H 7 HOH B 5 405 14 HOH HOH . H 7 HOH B 6 406 8 HOH HOH . H 7 HOH B 7 407 24 HOH HOH . H 7 HOH B 8 408 23 HOH HOH . H 7 HOH B 9 409 12 HOH HOH . H 7 HOH B 10 410 11 HOH HOH . H 7 HOH B 11 411 25 HOH HOH . H 7 HOH B 12 412 13 HOH HOH . H 7 HOH B 13 413 18 HOH HOH . H 7 HOH B 14 414 10 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 T0E . . . D 4 -29.416 -46.283 -1.016 1 129.07 ? O T0E 701 A 1 HETATM 2 C C6 T0E . . . D 4 -29.078 -45.491 -1.883 1 128.29 ? C6 T0E 701 A 1 HETATM 3 N N T0E . . . D 4 -27.822 -45.412 -2.345 1 127.55 ? N T0E 701 A 1 HETATM 4 C C7 T0E . . . D 4 -26.748 -46.295 -1.922 1 127.49 ? C7 T0E 701 A 1 HETATM 5 C C8 T0E . . . D 4 -25.989 -45.625 -0.818 1 125.75 ? C8 T0E 701 A 1 HETATM 6 N N2 T0E . . . D 4 -25.362 -44.455 -0.901 1 124.37 ? N2 T0E 701 A 1 HETATM 7 N N1 T0E . . . D 4 -24.759 -44.142 0.322 1 123.42 ? N1 T0E 701 A 1 HETATM 8 C C10 T0E . . . D 4 -25.048 -45.157 1.166 1 123.96 ? C10 T0E 701 A 1 HETATM 9 C C9 T0E . . . D 4 -25.806 -46.085 0.482 1 125.62 ? C9 T0E 701 A 1 HETATM 10 C C5 T0E . . . D 4 -30.157 -44.635 -2.497 1 128.35 ? C5 T0E 701 A 1 HETATM 11 C C T0E . . . D 4 -31.082 -43.925 -1.724 1 127.49 ? C T0E 701 A 1 HETATM 12 F F T0E . . . D 4 -31.035 -43.94 -0.373 1 125.34 ? F T0E 701 A 1 HETATM 13 C C4 T0E . . . D 4 -30.243 -44.598 -3.896 1 129.14 ? C4 T0E 701 A 1 HETATM 14 C C3 T0E . . . D 4 -31.234 -43.854 -4.554 1 128.33 ? C3 T0E 701 A 1 HETATM 15 C C2 T0E . . . D 4 -32.146 -43.135 -3.771 1 128.27 ? C2 T0E 701 A 1 HETATM 16 C C1 T0E . . . D 4 -32.071 -43.173 -2.373 1 127.53 ? C1 T0E 701 A 1 HETATM 17 C C11 T0E . . . D 4 -31.317 -43.79 -6.05 1 127.85 ? C11 T0E 701 A 1 HETATM 18 C C15 T0E . . . D 4 -30.166 -42.952 -6.615 1 124.53 ? C15 T0E 701 A 1 HETATM 19 C C14 T0E . . . D 4 -30.115 -42.947 -8.139 1 127.47 ? C14 T0E 701 A 1 HETATM 20 N N3 T0E . . . D 4 -30.091 -44.321 -8.637 1 130.69 ? N3 T0E 701 A 1 HETATM 21 C C13 T0E . . . D 4 -31.303 -45.034 -8.208 1 133.11 ? C13 T0E 701 A 1 HETATM 22 C C12 T0E . . . D 4 -31.295 -45.171 -6.69 1 130.56 ? C12 T0E 701 A 1 HETATM 23 C C16 T0E . . . D 4 -30.194 -41.5 -6.15 1 120.59 ? C16 T0E 701 A 1 HETATM 24 O O1 T0E . . . D 4 -31.479 -40.865 -6.151 1 118.99 ? O1 T0E 701 A 1 HETATM 25 C C17 T0E . . . D 4 -31.583 -39.489 -6.03 1 116.69 ? C17 T0E 701 A 1 HETATM 26 C C23 T0E . . . D 4 -30.511 -38.685 -5.588 1 114.67 ? C23 T0E 701 A 1 HETATM 27 C C22 T0E . . . D 4 -30.68 -37.31 -5.495 1 113.27 ? C22 T0E 701 A 1 HETATM 28 O O3 T0E . . . D 4 -29.778 -36.371 -5.088 1 110.64 ? O3 T0E 701 A 1 HETATM 29 C C21 T0E . . . D 4 -30.387 -35.093 -5.294 1 110.73 ? C21 T0E 701 A 1 HETATM 30 O O2 T0E . . . D 4 -31.751 -35.377 -5.658 1 113.14 ? O2 T0E 701 A 1 HETATM 31 C C20 T0E . . . D 4 -31.861 -36.72 -5.837 1 114.12 ? C20 T0E 701 A 1 HETATM 32 C C19 T0E . . . D 4 -32.939 -37.465 -6.286 1 116.07 ? C19 T0E 701 A 1 HETATM 33 C C18 T0E . . . D 4 -32.79 -38.857 -6.374 1 117.49 ? C18 T0E 701 A 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 33 #