data_5EKN # _model_server_result.job_id VpCUBBwhuFCcn165bX7BNg _model_server_result.datetime_utc '2025-04-10 16:24:45' _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 5ekn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5EKN # _exptl.entry_id 5EKN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 381.495 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-(3-tert-butyl-1-methyl-1H-pyrazol-5-yl)-3-[4-(pyridin-4-ylsulfanyl)phenyl]urea _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 5EKN _cell.length_a 61.047 _cell.length_b 70.206 _cell.length_c 92.908 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5EKN _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _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 # _chem_comp.formula 'C20 H23 N5 O S' _chem_comp.formula_weight 381.495 _chem_comp.id N58 _chem_comp.mon_nstd_flag . _chem_comp.name 1-(3-tert-butyl-1-methyl-1H-pyrazol-5-yl)-3-[4-(pyridin-4-ylsulfanyl)phenyl]urea _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 C17 N5 N58 doub 237 n y C17 C18 N58 sing 238 n y N5 C16 N58 sing 239 n y C18 C14 N58 doub 240 n y C16 C15 N58 doub 241 n y C14 C15 N58 sing 242 n y C14 S N58 sing 243 n n S C13 N58 sing 244 n n C12 C13 N58 doub 245 n y C12 C11 N58 sing 246 n y C13 C19 N58 sing 247 n y C11 C10 N58 doub 248 n y C19 C20 N58 doub 249 n y C10 C20 N58 sing 250 n y C10 N4 N58 sing 251 n n N4 C9 N58 sing 252 n n C9 O1 N58 doub 253 n n C9 N3 N58 sing 254 n n N3 C8 N58 sing 255 n n C8 C7 N58 doub 256 n y C8 N1 N58 sing 257 n y C7 C2 N58 sing 258 n y N1 C1 N58 sing 259 n n N1 N2 N58 sing 260 n y C2 C3 N58 sing 261 n n C2 N2 N58 doub 262 n y C6 C3 N58 sing 263 n n C4 C3 N58 sing 264 n n C3 C5 N58 sing 265 n n N3 H1 N58 sing 266 n n C7 H2 N58 sing 267 n n C6 H3 N58 sing 268 n n C6 H4 N58 sing 269 n n C6 H5 N58 sing 270 n n C5 H6 N58 sing 271 n n C5 H7 N58 sing 272 n n C5 H8 N58 sing 273 n n C4 H9 N58 sing 274 n n C4 H10 N58 sing 275 n n C4 H11 N58 sing 276 n n C1 H12 N58 sing 277 n n C1 H13 N58 sing 278 n n C1 H14 N58 sing 279 n n N4 H15 N58 sing 280 n n C20 H16 N58 sing 281 n n C19 H17 N58 sing 282 n n C12 H18 N58 sing 283 n n C11 H19 N58 sing 284 n n C18 H20 N58 sing 285 n n C17 H21 N58 sing 286 n n C16 H22 N58 sing 287 n n C15 H23 N58 sing 288 n n # _atom_sites.entry_id 5EKN _atom_sites.fract_transf_matrix[1][1] 0.016381 _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] 0.014244 _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] 0.010763 _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 N58 A 1 401 401 N58 N58 . C 3 HOH A 1 501 22 HOH HOH . C 3 HOH A 2 502 2 HOH HOH . C 3 HOH A 3 503 21 HOH HOH . C 3 HOH A 4 504 1 HOH HOH . C 3 HOH A 5 505 4 HOH HOH . C 3 HOH A 6 506 17 HOH HOH . C 3 HOH A 7 507 23 HOH HOH . C 3 HOH A 8 508 5 HOH HOH . C 3 HOH A 9 509 8 HOH HOH . C 3 HOH A 10 510 14 HOH HOH . C 3 HOH A 11 511 19 HOH HOH . C 3 HOH A 12 512 7 HOH HOH . C 3 HOH A 13 513 13 HOH HOH . C 3 HOH A 14 514 6 HOH HOH . C 3 HOH A 15 515 3 HOH HOH . C 3 HOH A 16 516 15 HOH HOH . C 3 HOH A 17 517 10 HOH HOH . C 3 HOH A 18 518 20 HOH HOH . C 3 HOH A 19 519 12 HOH HOH . C 3 HOH A 20 520 11 HOH HOH . C 3 HOH A 21 521 9 HOH HOH . C 3 HOH A 22 522 16 HOH HOH . C 3 HOH A 23 523 18 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 O1 N58 . . . B 2 -13.25 12.037 -26.367 1 38.47 ? O1 N58 401 A 1 HETATM 2 C C9 N58 . . . B 2 -14.309 11.429 -26.454 1 39.98 ? C9 N58 401 A 1 HETATM 3 N N3 N58 . . . B 2 -15.257 11.673 -25.371 1 42.84 ? N3 N58 401 A 1 HETATM 4 C C8 N58 . . . B 2 -15.051 12.54 -24.223 1 35.67 ? C8 N58 401 A 1 HETATM 5 C C7 N58 . . . B 2 -14.585 13.872 -24.111 1 40.35 ? C7 N58 401 A 1 HETATM 6 C C2 N58 . . . B 2 -14.563 14.259 -22.728 1 34.91 ? C2 N58 401 A 1 HETATM 7 C C3 N58 . . . B 2 -14.136 15.614 -22.131 1 32.76 ? C3 N58 401 A 1 HETATM 8 C C6 N58 . . . B 2 -12.711 15.994 -22.552 1 38.67 ? C6 N58 401 A 1 HETATM 9 C C5 N58 . . . B 2 -14.133 15.613 -20.593 1 34.06 ? C5 N58 401 A 1 HETATM 10 C C4 N58 . . . B 2 -15.039 16.775 -22.576 1 39.03 ? C4 N58 401 A 1 HETATM 11 N N2 N58 . . . B 2 -15.013 13.183 -21.999 1 43.84 ? N2 N58 401 A 1 HETATM 12 N N1 N58 . . . B 2 -15.3 12.169 -22.895 1 38.8 ? N1 N58 401 A 1 HETATM 13 C C1 N58 . . . B 2 -15.812 10.844 -22.481 1 30.87 ? C1 N58 401 A 1 HETATM 14 N N4 N58 . . . B 2 -14.53 10.544 -27.588 1 38.15 ? N4 N58 401 A 1 HETATM 15 C C10 N58 . . . B 2 -13.631 10.248 -28.721 1 41.89 ? C10 N58 401 A 1 HETATM 16 C C20 N58 . . . B 2 -12.237 10.422 -28.694 1 46.97 ? C20 N58 401 A 1 HETATM 17 C C19 N58 . . . B 2 -11.383 10.136 -29.775 1 45.78 ? C19 N58 401 A 1 HETATM 18 C C13 N58 . . . B 2 -11.848 9.636 -30.98 1 43.76 ? C13 N58 401 A 1 HETATM 19 C C12 N58 . . . B 2 -13.224 9.451 -31.058 1 44.84 ? C12 N58 401 A 1 HETATM 20 C C11 N58 . . . B 2 -14.079 9.737 -29.976 1 46.66 ? C11 N58 401 A 1 HETATM 21 S S N58 . . . B 2 -10.769 9.287 -32.36 1 50.21 ? S N58 401 A 1 HETATM 22 C C14 N58 . . . B 2 -10.546 10.772 -33.34 1 42.25 ? C14 N58 401 A 1 HETATM 23 C C18 N58 . . . B 2 -9.648 10.826 -34.406 1 43.99 ? C18 N58 401 A 1 HETATM 24 C C17 N58 . . . B 2 -9.525 12.027 -35.126 1 43.44 ? C17 N58 401 A 1 HETATM 25 N N5 N58 . . . B 2 -10.234 13.146 -34.842 1 47.19 ? N5 N58 401 A 1 HETATM 26 C C16 N58 . . . B 2 -11.098 13.075 -33.804 1 38.79 ? C16 N58 401 A 1 HETATM 27 C C15 N58 . . . B 2 -11.284 11.919 -33.035 1 30.88 ? C15 N58 401 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #