data_5TOB # _model_server_result.job_id 4fHLCnQ7ocEuLNF5JnFSrA _model_server_result.datetime_utc '2024-12-22 18:35:05' _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 5tob # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":701}' # _entry.id 5TOB # _exptl.entry_id 5TOB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.489 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-methyl-N-{3-[({2-[(2-oxo-2,3-dihydro-1H-indol-5-yl)amino]-5-(trifluoromethyl)pyrimidin-4-yl}amino)methyl]pyridin-2-yl}methanesulfonamide _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 92.53 _cell.angle_gamma 90 _cell.entry_id 5TOB _cell.length_a 37.584 _cell.length_b 93.808 _cell.length_c 42.519 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TOB _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 'C21 H20 F3 N7 O3 S' _chem_comp.formula_weight 507.489 _chem_comp.id YAM _chem_comp.mon_nstd_flag . _chem_comp.name N-methyl-N-{3-[({2-[(2-oxo-2,3-dihydro-1H-indol-5-yl)amino]-5-(trifluoromethyl)pyrimidin-4-yl}amino)methyl]pyridin-2-yl}methanesulfonamide _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 N30 C35 YAM sing 376 n n C35 H35 YAM sing 377 n n C35 H35A YAM sing 378 n n C35 H35B YAM sing 379 n n S31 C34 YAM sing 380 n n C34 H34 YAM sing 381 n n C34 H34A YAM sing 382 n n C34 H34B YAM sing 383 n n C3 N2 YAM doub 384 n y N2 C7 YAM sing 385 n y C7 C6 YAM doub 386 n y C7 H7 YAM sing 387 n n C5 C6 YAM sing 388 n y C6 C8 YAM sing 389 n n C17 C13 YAM doub 390 n y C13 C12 YAM sing 391 n n C13 C20 YAM sing 392 n y N1 C20 YAM doub 393 n y C20 N30 YAM sing 394 n n N25 C21 YAM sing 395 n n C22 C21 YAM doub 396 n y C21 C15 YAM sing 397 n y F28 C8 YAM sing 398 n n C8 F27 YAM sing 399 n n C8 F29 YAM sing 400 n n C18 C17 YAM sing 401 n y C18 C19 YAM doub 402 n y C18 H18 YAM sing 403 n n C15 C16 YAM doub 404 n y C11 C16 YAM sing 405 n y C16 H16 YAM sing 406 n n C19 N1 YAM sing 407 n y C19 H19 YAM sing 408 n n O33 S31 YAM doub 409 n n N30 S31 YAM sing 410 n n S31 O32 YAM doub 411 n n C17 H17 YAM sing 412 n n C12 N10 YAM sing 413 n n C12 H12 YAM sing 414 n n C12 H12A YAM sing 415 n n C5 N10 YAM sing 416 n n N10 HN10 YAM sing 417 n n N4 C5 YAM doub 418 n y N4 C3 YAM sing 419 n y N9 C3 YAM sing 420 n n C11 N9 YAM sing 421 n n N9 HN9 YAM sing 422 n n C14 C11 YAM doub 423 n y C22 C14 YAM sing 424 n y C14 H14 YAM sing 425 n n C23 C22 YAM sing 426 n n C24 C23 YAM sing 427 n n C23 H23 YAM sing 428 n n C23 H23A YAM sing 429 n n C15 H15 YAM sing 430 n n C24 N25 YAM sing 431 n n N25 HN25 YAM sing 432 n n O26 C24 YAM doub 433 n n # _atom_sites.entry_id 5TOB _atom_sites.fract_transf_matrix[1][1] 0.026607 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001173 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01066 _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] 0.023542 _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 YAM A 1 701 1 YAM LIG . C 3 HOH A 1 801 73 HOH HOH . C 3 HOH A 2 802 83 HOH HOH . C 3 HOH A 3 803 47 HOH HOH . C 3 HOH A 4 804 68 HOH HOH . C 3 HOH A 5 805 104 HOH HOH . C 3 HOH A 6 806 114 HOH HOH . C 3 HOH A 7 807 95 HOH HOH . C 3 HOH A 8 808 81 HOH HOH . C 3 HOH A 9 809 113 HOH HOH . C 3 HOH A 10 810 51 HOH HOH . C 3 HOH A 11 811 71 HOH HOH . C 3 HOH A 12 812 65 HOH HOH . C 3 HOH A 13 813 56 HOH HOH . C 3 HOH A 14 814 45 HOH HOH . C 3 HOH A 15 815 25 HOH HOH . C 3 HOH A 16 816 77 HOH HOH . C 3 HOH A 17 817 93 HOH HOH . C 3 HOH A 18 818 118 HOH HOH . C 3 HOH A 19 819 42 HOH HOH . C 3 HOH A 20 820 38 HOH HOH . C 3 HOH A 21 821 57 HOH HOH . C 3 HOH A 22 822 110 HOH HOH . C 3 HOH A 23 823 63 HOH HOH . C 3 HOH A 24 824 46 HOH HOH . C 3 HOH A 25 825 122 HOH HOH . C 3 HOH A 26 826 98 HOH HOH . C 3 HOH A 27 827 41 HOH HOH . C 3 HOH A 28 828 23 HOH HOH . C 3 HOH A 29 829 43 HOH HOH . C 3 HOH A 30 830 97 HOH HOH . C 3 HOH A 31 831 32 HOH HOH . C 3 HOH A 32 832 36 HOH HOH . C 3 HOH A 33 833 21 HOH HOH . C 3 HOH A 34 834 64 HOH HOH . C 3 HOH A 35 835 35 HOH HOH . C 3 HOH A 36 836 2 HOH HOH . C 3 HOH A 37 837 6 HOH HOH . C 3 HOH A 38 838 26 HOH HOH . C 3 HOH A 39 839 85 HOH HOH . C 3 HOH A 40 840 10 HOH HOH . C 3 HOH A 41 841 80 HOH HOH . C 3 HOH A 42 842 106 HOH HOH . C 3 HOH A 43 843 92 HOH HOH . C 3 HOH A 44 844 87 HOH HOH . C 3 HOH A 45 845 59 HOH HOH . C 3 HOH A 46 846 4 HOH HOH . C 3 HOH A 47 847 7 HOH HOH . C 3 HOH A 48 848 53 HOH HOH . C 3 HOH A 49 849 1 HOH HOH . C 3 HOH A 50 850 27 HOH HOH . C 3 HOH A 51 851 117 HOH HOH . C 3 HOH A 52 852 3 HOH HOH . C 3 HOH A 53 853 19 HOH HOH . C 3 HOH A 54 854 33 HOH HOH . C 3 HOH A 55 855 91 HOH HOH . C 3 HOH A 56 856 82 HOH HOH . C 3 HOH A 57 857 72 HOH HOH . C 3 HOH A 58 858 24 HOH HOH . C 3 HOH A 59 859 5 HOH HOH . C 3 HOH A 60 860 96 HOH HOH . C 3 HOH A 61 861 116 HOH HOH . C 3 HOH A 62 862 34 HOH HOH . C 3 HOH A 63 863 48 HOH HOH . C 3 HOH A 64 864 37 HOH HOH . C 3 HOH A 65 865 67 HOH HOH . C 3 HOH A 66 866 18 HOH HOH . C 3 HOH A 67 867 58 HOH HOH . C 3 HOH A 68 868 86 HOH HOH . C 3 HOH A 69 869 78 HOH HOH . C 3 HOH A 70 870 14 HOH HOH . C 3 HOH A 71 871 16 HOH HOH . C 3 HOH A 72 872 15 HOH HOH . C 3 HOH A 73 873 62 HOH HOH . C 3 HOH A 74 874 50 HOH HOH . C 3 HOH A 75 875 44 HOH HOH . C 3 HOH A 76 876 9 HOH HOH . C 3 HOH A 77 877 55 HOH HOH . C 3 HOH A 78 878 75 HOH HOH . C 3 HOH A 79 879 39 HOH HOH . C 3 HOH A 80 880 8 HOH HOH . C 3 HOH A 81 881 17 HOH HOH . C 3 HOH A 82 882 12 HOH HOH . C 3 HOH A 83 883 11 HOH HOH . C 3 HOH A 84 884 13 HOH HOH . C 3 HOH A 85 885 119 HOH HOH . C 3 HOH A 86 886 61 HOH HOH . C 3 HOH A 87 887 54 HOH HOH . C 3 HOH A 88 888 22 HOH HOH . C 3 HOH A 89 889 105 HOH HOH . C 3 HOH A 90 890 111 HOH HOH . C 3 HOH A 91 891 88 HOH HOH . C 3 HOH A 92 892 115 HOH HOH . C 3 HOH A 93 893 28 HOH HOH . C 3 HOH A 94 894 29 HOH HOH . C 3 HOH A 95 895 52 HOH HOH . C 3 HOH A 96 896 100 HOH HOH . C 3 HOH A 97 897 112 HOH HOH . C 3 HOH A 98 898 66 HOH HOH . C 3 HOH A 99 899 103 HOH HOH . C 3 HOH A 100 900 79 HOH HOH . C 3 HOH A 101 901 109 HOH HOH . C 3 HOH A 102 902 69 HOH HOH . C 3 HOH A 103 903 120 HOH HOH . C 3 HOH A 104 904 89 HOH HOH . C 3 HOH A 105 905 102 HOH HOH . C 3 HOH A 106 906 121 HOH HOH . C 3 HOH A 107 907 40 HOH HOH . C 3 HOH A 108 908 90 HOH HOH . C 3 HOH A 109 909 107 HOH HOH . C 3 HOH A 110 910 31 HOH HOH . C 3 HOH A 111 911 74 HOH HOH . C 3 HOH A 112 912 70 HOH HOH . C 3 HOH A 113 913 84 HOH HOH . C 3 HOH A 114 914 60 HOH HOH . C 3 HOH A 115 915 76 HOH HOH . C 3 HOH A 116 916 99 HOH HOH . C 3 HOH A 117 917 49 HOH HOH . C 3 HOH A 118 918 101 HOH HOH . C 3 HOH A 119 919 108 HOH HOH . C 3 HOH A 120 920 94 HOH HOH . C 3 HOH A 121 921 30 HOH HOH . C 3 HOH A 122 922 20 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 C C35 YAM . . . B 2 -1.634 -12.372 37.433 1 18.01 ? C35 YAM 701 A 1 HETATM 2 C C34 YAM . . . B 2 -1.798 -12.338 33.985 1 24.87 ? C34 YAM 701 A 1 HETATM 3 N N2 YAM . . . B 2 3.265 -8.883 41.442 1 9.52 ? N2 YAM 701 A 1 HETATM 4 C C7 YAM . . . B 2 4.231 -8.555 40.563 1 10.6 ? C7 YAM 701 A 1 HETATM 5 C C6 YAM . . . B 2 4.171 -8.843 39.208 1 13.76 ? C6 YAM 701 A 1 HETATM 6 C C13 YAM . . . B 2 0.594 -9.731 36.613 1 18.35 ? C13 YAM 701 A 1 HETATM 7 C C20 YAM . . . B 2 -0.66 -10.275 36.309 1 24.71 ? C20 YAM 701 A 1 HETATM 8 C C21 YAM . . . B 2 -2.766 -11.123 41.36 1 24.25 ? C21 YAM 701 A 1 HETATM 9 C C8 YAM . . . B 2 5.262 -8.419 38.285 1 14.86 ? C8 YAM 701 A 1 HETATM 10 C C18 YAM . . . B 2 -0.348 -7.532 36.225 1 13.03 ? C18 YAM 701 A 1 HETATM 11 C C16 YAM . . . B 2 -0.906 -10.003 40.447 1 20.46 ? C16 YAM 701 A 1 HETATM 12 C C19 YAM . . . B 2 -1.548 -8.172 35.933 1 27 ? C19 YAM 701 A 1 HETATM 13 O O33 YAM . . . B 2 0.751 -12.047 34.307 1 18.47 ? O33 YAM 701 A 1 HETATM 14 S S31 YAM . . . B 2 -0.362 -12.68 35.002 1 26.02 ? S31 YAM 701 A 1 HETATM 15 O O32 YAM . . . B 2 -0.382 -14.088 35.321 1 18.67 ? O32 YAM 701 A 1 HETATM 16 N N30 YAM . . . B 2 -0.888 -11.728 36.329 1 21.73 ? N30 YAM 701 A 1 HETATM 17 C C17 YAM . . . B 2 0.735 -8.331 36.569 1 18.97 ? C17 YAM 701 A 1 HETATM 18 N N1 YAM . . . B 2 -1.733 -9.51 35.967 1 21.76 ? N1 YAM 701 A 1 HETATM 19 C C12 YAM . . . B 2 1.762 -10.597 36.983 1 18.69 ? C12 YAM 701 A 1 HETATM 20 N N10 YAM . . . B 2 2.872 -9.776 37.41 1 14.01 ? N10 YAM 701 A 1 HETATM 21 C C5 YAM . . . B 2 3.014 -9.477 38.758 1 13.74 ? C5 YAM 701 A 1 HETATM 22 F F29 YAM . . . B 2 4.772 -7.592 37.311 1 9.54 ? F29 YAM 701 A 1 HETATM 23 F F28 YAM . . . B 2 6.206 -7.635 38.877 1 17.98 ? F28 YAM 701 A 1 HETATM 24 F F27 YAM . . . B 2 5.898 -9.444 37.667 1 13.72 ? F27 YAM 701 A 1 HETATM 25 N N4 YAM . . . B 2 2.034 -9.819 39.625 1 13.41 ? N4 YAM 701 A 1 HETATM 26 C C3 YAM . . . B 2 2.178 -9.504 40.932 1 12.78 ? C3 YAM 701 A 1 HETATM 27 N N9 YAM . . . B 2 1.167 -9.82 41.835 1 11.77 ? N9 YAM 701 A 1 HETATM 28 C C11 YAM . . . B 2 -0.159 -10.238 41.632 1 25.22 ? C11 YAM 701 A 1 HETATM 29 C C14 YAM . . . B 2 -0.757 -10.948 42.689 1 13.49 ? C14 YAM 701 A 1 HETATM 30 C C22 YAM . . . B 2 -2.053 -11.368 42.526 1 18.8 ? C22 YAM 701 A 1 HETATM 31 C C23 YAM . . . B 2 -2.904 -12.127 43.488 1 44.77 ? C23 YAM 701 A 1 HETATM 32 C C15 YAM . . . B 2 -2.223 -10.442 40.294 1 25.17 ? C15 YAM 701 A 1 HETATM 33 N N25 YAM . . . B 2 -4.042 -11.667 41.473 1 23.79 ? N25 YAM 701 A 1 HETATM 34 C C24 YAM . . . B 2 -4.218 -12.295 42.714 1 35.76 ? C24 YAM 701 A 1 HETATM 35 O O26 YAM . . . B 2 -5.206 -12.881 43.144 1 40.32 ? O26 YAM 701 A 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 719 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 35 #