data_3EFW # _model_server_result.job_id pZwpM9mWMLoYhatitypFWg _model_server_result.datetime_utc '2025-01-10 08:55:47' _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 3efw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 3EFW # _exptl.entry_id 3EFW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 494.468 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-[3-methyl-4-({3-[2-(methylamino)pyrimidin-4-yl]pyridin-2-yl}oxy)phenyl]-3-[3-(trifluoromethyl)phenyl]urea _entity.pdbx_number_of_molecules 2 _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 3EFW _cell.length_a 118.511 _cell.length_b 125.448 _cell.length_c 75.752 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3EFW _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # _chem_comp.formula 'C25 H21 F3 N6 O2' _chem_comp.formula_weight 494.468 _chem_comp.id AK8 _chem_comp.mon_nstd_flag . _chem_comp.name 1-[3-methyl-4-({3-[2-(methylamino)pyrimidin-4-yl]pyridin-2-yl}oxy)phenyl]-3-[3-(trifluoromethyl)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 N1 C1 AK8 doub 1 n y N1 C2 AK8 sing 2 n y N3 C8 AK8 doub 3 n y N3 C9 AK8 sing 4 n y C4 N2 AK8 doub 5 n y C4 C3 AK8 sing 6 n y C5 C6 AK8 sing 7 n y C5 C2 AK8 sing 8 n y C5 C9 AK8 doub 9 n y C6 C7 AK8 doub 10 n y C7 C8 AK8 sing 11 n y C10 N4 AK8 sing 12 n n C13 C12 AK8 doub 13 n y C13 C14 AK8 sing 14 n y C15 C16 AK8 sing 15 n y C15 C14 AK8 doub 16 n y C17 C16 AK8 sing 17 n n C20 C21 AK8 doub 18 n y C20 C19 AK8 sing 19 n y C21 C22 AK8 sing 20 n y C22 C23 AK8 doub 21 n y C24 C19 AK8 doub 22 n y C24 C23 AK8 sing 23 n y N4 C1 AK8 sing 24 n n C1 N2 AK8 sing 25 n y C3 C2 AK8 doub 26 n y C9 O1 AK8 sing 27 n n O1 C11 AK8 sing 28 n n C11 C16 AK8 doub 29 n y C11 C12 AK8 sing 30 n y C14 N5 AK8 sing 31 n n N5 C18 AK8 sing 32 n n C18 O2 AK8 doub 33 n n C18 N6 AK8 sing 34 n n N6 C19 AK8 sing 35 n n C23 C25 AK8 sing 36 n n C25 F2 AK8 sing 37 n n C25 F3 AK8 sing 38 n n C25 F1 AK8 sing 39 n n C4 H4 AK8 sing 40 n n C6 H6 AK8 sing 41 n n C7 H7 AK8 sing 42 n n C8 H8 AK8 sing 43 n n C10 H10 AK8 sing 44 n n C10 H10A AK8 sing 45 n n C10 H10B AK8 sing 46 n n C13 H13 AK8 sing 47 n n C15 H15 AK8 sing 48 n n C17 H17 AK8 sing 49 n n C17 H17A AK8 sing 50 n n C17 H17B AK8 sing 51 n n C20 H20 AK8 sing 52 n n C21 H21 AK8 sing 53 n n C22 H22 AK8 sing 54 n n C24 H24 AK8 sing 55 n n N4 HN4 AK8 sing 56 n n C3 H3 AK8 sing 57 n n C12 H12 AK8 sing 58 n n N5 HN5 AK8 sing 59 n n N6 HN6 AK8 sing 60 n n # _atom_sites.entry_id 3EFW _atom_sites.fract_transf_matrix[1][1] 0.008438 _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] 0.007971 _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] 0.013201 _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 C 2 AK8 A 1 404 1 AK8 AK8 . D 3 SO4 A 1 405 2 SO4 SO4 . E 2 AK8 B 1 404 1 AK8 AK8 . F 3 SO4 B 1 405 1 SO4 SO4 . G 4 HOH A 1 406 1 HOH HOH . G 4 HOH A 2 407 24 HOH HOH . G 4 HOH A 3 408 25 HOH HOH . G 4 HOH A 4 409 28 HOH HOH . G 4 HOH A 5 410 34 HOH HOH . G 4 HOH A 6 411 35 HOH HOH . G 4 HOH A 7 412 37 HOH HOH . G 4 HOH A 8 414 42 HOH HOH . G 4 HOH A 9 415 43 HOH HOH . G 4 HOH A 10 416 44 HOH HOH . G 4 HOH A 11 417 45 HOH HOH . G 4 HOH A 12 418 48 HOH HOH . G 4 HOH A 13 419 50 HOH HOH . G 4 HOH A 14 420 51 HOH HOH . G 4 HOH A 15 421 53 HOH HOH . G 4 HOH A 16 422 59 HOH HOH . G 4 HOH A 17 444 55 HOH HOH . H 4 HOH B 1 413 38 HOH HOH . H 4 HOH B 2 414 2 HOH HOH . H 4 HOH B 3 415 3 HOH HOH . H 4 HOH B 4 416 4 HOH HOH . H 4 HOH B 5 417 5 HOH HOH . H 4 HOH B 6 418 6 HOH HOH . H 4 HOH B 7 419 7 HOH HOH . H 4 HOH B 8 420 8 HOH HOH . H 4 HOH B 9 421 9 HOH HOH . H 4 HOH B 10 422 10 HOH HOH . H 4 HOH B 11 423 11 HOH HOH . H 4 HOH B 12 424 12 HOH HOH . H 4 HOH B 13 425 13 HOH HOH . H 4 HOH B 14 426 14 HOH HOH . H 4 HOH B 15 427 15 HOH HOH . H 4 HOH B 16 428 16 HOH HOH . H 4 HOH B 17 429 17 HOH HOH . H 4 HOH B 18 430 18 HOH HOH . H 4 HOH B 19 431 19 HOH HOH . H 4 HOH B 20 432 20 HOH HOH . H 4 HOH B 21 433 21 HOH HOH . H 4 HOH B 22 434 22 HOH HOH . H 4 HOH B 23 435 23 HOH HOH . H 4 HOH B 24 436 26 HOH HOH . H 4 HOH B 25 437 27 HOH HOH . H 4 HOH B 26 438 29 HOH HOH . H 4 HOH B 27 439 30 HOH HOH . H 4 HOH B 28 440 31 HOH HOH . H 4 HOH B 29 441 32 HOH HOH . H 4 HOH B 30 442 33 HOH HOH . H 4 HOH B 31 443 36 HOH HOH . H 4 HOH B 32 444 39 HOH HOH . H 4 HOH B 33 445 40 HOH HOH . H 4 HOH B 34 446 41 HOH HOH . H 4 HOH B 35 447 46 HOH HOH . H 4 HOH B 36 448 47 HOH HOH . H 4 HOH B 37 449 49 HOH HOH . H 4 HOH B 38 450 52 HOH HOH . H 4 HOH B 39 451 54 HOH HOH . H 4 HOH B 40 452 56 HOH HOH . H 4 HOH B 41 453 57 HOH HOH . H 4 HOH B 42 454 58 HOH HOH . H 4 HOH B 43 455 60 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 N N1 AK8 . . . E 2 31.77 69.029 22.758 1 25.31 ? N1 AK8 404 B 1 HETATM 2 N N3 AK8 . . . E 2 36.254 69.558 24.067 1 28.7 ? N3 AK8 404 B 1 HETATM 3 C C4 AK8 . . . E 2 32.129 69.418 20.112 1 24.72 ? C4 AK8 404 B 1 HETATM 4 C C5 AK8 . . . E 2 33.995 69.59 23.311 1 26.81 ? C5 AK8 404 B 1 HETATM 5 C C6 AK8 . . . E 2 33.601 70.045 24.573 1 27.19 ? C6 AK8 404 B 1 HETATM 6 C C7 AK8 . . . E 2 34.554 70.25 25.563 1 28.19 ? C7 AK8 404 B 1 HETATM 7 C C8 AK8 . . . E 2 35.892 69.991 25.272 1 28.29 ? C8 AK8 404 B 1 HETATM 8 C C10 AK8 . . . E 2 29.273 68.376 23.8 1 23.72 ? C10 AK8 404 B 1 HETATM 9 C C13 AK8 . . . E 2 39.181 69.674 20.688 1 32 ? C13 AK8 404 B 1 HETATM 10 C C15 AK8 . . . E 2 39.212 67.562 21.84 1 31.74 ? C15 AK8 404 B 1 HETATM 11 C C17 AK8 . . . E 2 37.121 66.543 22.842 1 31.43 ? C17 AK8 404 B 1 HETATM 12 C C20 AK8 . . . E 2 44.52 70.938 21.851 1 36.77 ? C20 AK8 404 B 1 HETATM 13 C C21 AK8 . . . E 2 45.692 71.655 22.096 1 37.07 ? C21 AK8 404 B 1 HETATM 14 C C22 AK8 . . . E 2 46.925 71.113 21.742 1 36.9 ? C22 AK8 404 B 1 HETATM 15 C C24 AK8 . . . E 2 45.806 69.138 20.9 1 36.68 ? C24 AK8 404 B 1 HETATM 16 N N4 AK8 . . . E 2 29.567 68.456 22.353 1 25.34 ? N4 AK8 404 B 1 HETATM 17 C C1 AK8 . . . E 2 30.759 68.839 21.896 1 24.43 ? C1 AK8 404 B 1 HETATM 18 N N2 AK8 . . . E 2 30.949 69.032 20.578 1 24.85 ? N2 AK8 404 B 1 HETATM 19 C C3 AK8 . . . E 2 33.199 69.619 20.98 1 25.06 ? C3 AK8 404 B 1 HETATM 20 C C2 AK8 . . . E 2 32.995 69.404 22.345 1 26.34 ? C2 AK8 404 B 1 HETATM 21 C C9 AK8 . . . E 2 35.36 69.348 23.073 1 28.63 ? C9 AK8 404 B 1 HETATM 22 O O1 AK8 . . . E 2 35.784 68.903 21.839 1 30.69 ? O1 AK8 404 B 1 HETATM 23 C C11 AK8 . . . E 2 37.133 68.784 21.627 1 31.17 ? C11 AK8 404 B 1 HETATM 24 C C16 AK8 . . . E 2 37.838 67.661 22.077 1 31.5 ? C16 AK8 404 B 1 HETATM 25 C C12 AK8 . . . E 2 37.809 69.78 20.927 1 31.11 ? C12 AK8 404 B 1 HETATM 26 C C14 AK8 . . . E 2 39.895 68.56 21.145 1 32.52 ? C14 AK8 404 B 1 HETATM 27 N N5 AK8 . . . E 2 41.219 68.4 20.959 1 32.96 ? N5 AK8 404 B 1 HETATM 28 C C18 AK8 . . . E 2 42.161 69.317 21.251 1 34.81 ? C18 AK8 404 B 1 HETATM 29 O O2 AK8 . . . E 2 41.865 70.427 21.694 1 34.65 ? O2 AK8 404 B 1 HETATM 30 N N6 AK8 . . . E 2 43.436 68.95 21.011 1 35.83 ? N6 AK8 404 B 1 HETATM 31 C C19 AK8 . . . E 2 44.555 69.678 21.237 1 35.98 ? C19 AK8 404 B 1 HETATM 32 C C23 AK8 . . . E 2 46.99 69.849 21.145 1 37.4 ? C23 AK8 404 B 1 HETATM 33 C C25 AK8 . . . E 2 48.369 69.264 20.759 1 37.18 ? C25 AK8 404 B 1 HETATM 34 F F2 AK8 . . . E 2 48.399 67.943 20.891 1 38.41 ? F2 AK8 404 B 1 HETATM 35 F F3 AK8 . . . E 2 48.634 69.587 19.502 1 37.65 ? F3 AK8 404 B 1 HETATM 36 F F1 AK8 . . . E 2 49.323 69.746 21.534 1 37.51 ? F1 AK8 404 B 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 36 #