data_3V5Q # _model_server_result.job_id ncrxrYmG48FQBqa1NDvPUQ _model_server_result.datetime_utc '2025-02-05 16:54:21' _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 3v5q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":901}' # _entry.id 3V5Q # _exptl.entry_id 3V5Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 503.475 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-(3-{[(3Z)-2-oxo-3-(1H-pyrrol-2-ylmethylidene)-2,3-dihydro-1H-indol-6-yl]amino}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 120 _cell.entry_id 3V5Q _cell.length_a 65.58 _cell.length_b 65.58 _cell.length_c 177.252 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3V5Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32' # 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,F 1 1 B,E,G 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 ? 3 D N N ? 3 E N N # _chem_comp.formula 'C27 H20 F3 N5 O2' _chem_comp.formula_weight 503.475 _chem_comp.id 0F4 _chem_comp.mon_nstd_flag . _chem_comp.name 1-(3-{[(3Z)-2-oxo-3-(1H-pyrrol-2-ylmethylidene)-2,3-dihydro-1H-indol-6-yl]amino}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 F1 C2 0F4 sing 1 n n C5 C2 0F4 sing 2 n n C2 F4 0F4 sing 3 n n C2 F3 0F4 sing 4 n n C6 C5 0F4 doub 5 n y C5 C38 0F4 sing 6 n y C7 C6 0F4 sing 7 n y C6 H6 0F4 sing 8 n n C7 C8 0F4 doub 9 n y C7 H7 0F4 sing 10 n n C8 C9 0F4 sing 11 n y C8 H8 0F4 sing 12 n n C9 C38 0F4 doub 13 n y C9 N10 0F4 sing 14 n n N10 C11 0F4 sing 15 n n N10 HN10 0F4 sing 16 n n C11 O12 0F4 doub 17 n n C11 N13 0F4 sing 18 n n N13 C14 0F4 sing 19 n n N13 HN13 0F4 sing 20 n n C14 C15 0F4 doub 21 n y C14 C37 0F4 sing 22 n y C15 C16 0F4 sing 23 n y C15 H15 0F4 sing 24 n n C16 C17 0F4 doub 25 n y C16 H16 0F4 sing 26 n n C18 C17 0F4 sing 27 n y C17 H17 0F4 sing 28 n n C37 C18 0F4 doub 29 n y C18 N19 0F4 sing 30 n n N19 C20 0F4 sing 31 n n N19 HN19 0F4 sing 32 n n C20 C21 0F4 doub 33 n y C20 C36 0F4 sing 34 n y C21 C22 0F4 sing 35 n y C21 H21 0F4 sing 36 n n C22 C23 0F4 doub 37 n y C22 H22 0F4 sing 38 n n C24 C23 0F4 sing 39 n y C23 C28 0F4 sing 40 n n C36 C24 0F4 doub 41 n y C24 N25 0F4 sing 42 n n N25 C26 0F4 sing 43 n n N25 HN25 0F4 sing 44 n n C28 C26 0F4 sing 45 n n C26 O27 0F4 doub 46 n n C28 C29 0F4 doub 47 z n C29 C30 0F4 sing 48 n n C29 H29 0F4 sing 49 n n C30 N34 0F4 sing 50 n y C30 C31 0F4 doub 51 n y C31 C32 0F4 sing 52 n y C31 H31 0F4 sing 53 n n C33 C32 0F4 doub 54 n y C32 H32 0F4 sing 55 n n N34 C33 0F4 sing 56 n y C33 H33 0F4 sing 57 n n C36 H36 0F4 sing 58 n n C37 H37 0F4 sing 59 n n C38 H38 0F4 sing 60 n n N34 HN34 0F4 sing 61 n n # _atom_sites.entry_id 3V5Q _atom_sites.fract_transf_matrix[1][1] 0.015249 _atom_sites.fract_transf_matrix[1][2] 0.008804 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017608 _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] 0.005642 _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 CL A 1 901 1 CL CL . D 3 0F4 A 1 902 1 0F4 GNF . E 3 0F4 B 1 901 1 0F4 GNF . F 4 HOH A 1 1001 2 HOH HOH . F 4 HOH A 2 1002 3 HOH HOH . F 4 HOH A 3 1003 7 HOH HOH . F 4 HOH A 4 1004 8 HOH HOH . F 4 HOH A 5 1005 9 HOH HOH . F 4 HOH A 6 1006 11 HOH HOH . F 4 HOH A 7 1007 12 HOH HOH . F 4 HOH A 8 1008 14 HOH HOH . F 4 HOH A 9 1009 16 HOH HOH . F 4 HOH A 10 1010 17 HOH HOH . F 4 HOH A 11 1011 18 HOH HOH . F 4 HOH A 12 1012 19 HOH HOH . F 4 HOH A 13 1013 20 HOH HOH . F 4 HOH A 14 1014 25 HOH HOH . F 4 HOH A 15 1015 26 HOH HOH . F 4 HOH A 16 1016 27 HOH HOH . F 4 HOH A 17 1017 32 HOH HOH . F 4 HOH A 18 1018 40 HOH HOH . F 4 HOH A 19 1019 41 HOH HOH . F 4 HOH A 20 1020 42 HOH HOH . F 4 HOH A 21 1021 45 HOH HOH . F 4 HOH A 22 1022 47 HOH HOH . F 4 HOH A 23 1023 48 HOH HOH . F 4 HOH A 24 1024 53 HOH HOH . F 4 HOH A 25 1025 54 HOH HOH . F 4 HOH A 26 1026 55 HOH HOH . F 4 HOH A 27 1027 56 HOH HOH . F 4 HOH A 28 1028 61 HOH HOH . F 4 HOH A 29 1029 62 HOH HOH . F 4 HOH A 30 1030 63 HOH HOH . F 4 HOH A 31 1031 64 HOH HOH . F 4 HOH A 32 1032 68 HOH HOH . F 4 HOH A 33 1033 71 HOH HOH . F 4 HOH A 34 1034 76 HOH HOH . F 4 HOH A 35 1035 77 HOH HOH . F 4 HOH A 36 1036 78 HOH HOH . F 4 HOH A 37 1037 81 HOH HOH . F 4 HOH A 38 1038 82 HOH HOH . F 4 HOH A 39 1039 83 HOH HOH . F 4 HOH A 40 1040 84 HOH HOH . F 4 HOH A 41 1041 85 HOH HOH . F 4 HOH A 42 1042 86 HOH HOH . F 4 HOH A 43 1043 87 HOH HOH . F 4 HOH A 44 1044 88 HOH HOH . F 4 HOH A 45 1045 89 HOH HOH . F 4 HOH A 46 1046 90 HOH HOH . F 4 HOH A 47 1047 91 HOH HOH . F 4 HOH A 48 1048 95 HOH HOH . F 4 HOH A 49 1049 96 HOH HOH . F 4 HOH A 50 1050 97 HOH HOH . F 4 HOH A 51 1051 98 HOH HOH . F 4 HOH A 52 1052 99 HOH HOH . F 4 HOH A 53 1053 100 HOH HOH . F 4 HOH A 54 1054 101 HOH HOH . F 4 HOH A 55 1055 102 HOH HOH . F 4 HOH A 56 1056 103 HOH HOH . F 4 HOH A 57 1057 104 HOH HOH . F 4 HOH A 58 1058 105 HOH HOH . F 4 HOH A 59 1059 106 HOH HOH . F 4 HOH A 60 1060 107 HOH HOH . F 4 HOH A 61 1061 108 HOH HOH . F 4 HOH A 62 1062 109 HOH HOH . F 4 HOH A 63 1063 110 HOH HOH . F 4 HOH A 64 1064 111 HOH HOH . F 4 HOH A 65 1065 112 HOH HOH . F 4 HOH A 66 1066 113 HOH HOH . F 4 HOH A 67 1067 114 HOH HOH . F 4 HOH A 68 1068 115 HOH HOH . F 4 HOH A 69 1069 116 HOH HOH . F 4 HOH A 70 1070 117 HOH HOH . F 4 HOH A 71 1071 118 HOH HOH . F 4 HOH A 72 1072 120 HOH HOH . F 4 HOH A 73 1073 121 HOH HOH . F 4 HOH A 74 1074 122 HOH HOH . F 4 HOH A 75 1075 123 HOH HOH . F 4 HOH A 76 1076 125 HOH HOH . F 4 HOH A 77 1077 126 HOH HOH . F 4 HOH A 78 1078 127 HOH HOH . F 4 HOH A 79 1079 128 HOH HOH . F 4 HOH A 80 1080 129 HOH HOH . F 4 HOH A 81 1081 130 HOH HOH . F 4 HOH A 82 1082 131 HOH HOH . F 4 HOH A 83 1083 132 HOH HOH . F 4 HOH A 84 1084 133 HOH HOH . F 4 HOH A 85 1085 134 HOH HOH . F 4 HOH A 86 1086 135 HOH HOH . F 4 HOH A 87 1087 136 HOH HOH . F 4 HOH A 88 1088 137 HOH HOH . F 4 HOH A 89 1089 138 HOH HOH . F 4 HOH A 90 1090 139 HOH HOH . F 4 HOH A 91 1091 140 HOH HOH . F 4 HOH A 92 1092 141 HOH HOH . F 4 HOH A 93 1093 173 HOH HOH . F 4 HOH A 94 1094 176 HOH HOH . F 4 HOH A 95 1095 178 HOH HOH . F 4 HOH A 96 1096 180 HOH HOH . F 4 HOH A 97 1097 181 HOH HOH . F 4 HOH A 98 1098 182 HOH HOH . F 4 HOH A 99 1099 183 HOH HOH . F 4 HOH A 100 1100 188 HOH HOH . F 4 HOH A 101 1101 189 HOH HOH . G 4 HOH B 1 1001 4 HOH HOH . G 4 HOH B 2 1002 5 HOH HOH . G 4 HOH B 3 1003 6 HOH HOH . G 4 HOH B 4 1004 10 HOH HOH . G 4 HOH B 5 1005 13 HOH HOH . G 4 HOH B 6 1006 15 HOH HOH . G 4 HOH B 7 1007 21 HOH HOH . G 4 HOH B 8 1008 22 HOH HOH . G 4 HOH B 9 1009 23 HOH HOH . G 4 HOH B 10 1010 24 HOH HOH . G 4 HOH B 11 1011 28 HOH HOH . G 4 HOH B 12 1012 29 HOH HOH . G 4 HOH B 13 1013 30 HOH HOH . G 4 HOH B 14 1014 31 HOH HOH . G 4 HOH B 15 1015 33 HOH HOH . G 4 HOH B 16 1016 34 HOH HOH . G 4 HOH B 17 1017 35 HOH HOH . G 4 HOH B 18 1018 36 HOH HOH . G 4 HOH B 19 1019 37 HOH HOH . G 4 HOH B 20 1020 38 HOH HOH . G 4 HOH B 21 1021 39 HOH HOH . G 4 HOH B 22 1022 43 HOH HOH . G 4 HOH B 23 1023 44 HOH HOH . G 4 HOH B 24 1024 46 HOH HOH . G 4 HOH B 25 1025 49 HOH HOH . G 4 HOH B 26 1026 50 HOH HOH . G 4 HOH B 27 1027 51 HOH HOH . G 4 HOH B 28 1028 52 HOH HOH . G 4 HOH B 29 1029 57 HOH HOH . G 4 HOH B 30 1030 58 HOH HOH . G 4 HOH B 31 1031 59 HOH HOH . G 4 HOH B 32 1032 60 HOH HOH . G 4 HOH B 33 1033 65 HOH HOH . G 4 HOH B 34 1034 66 HOH HOH . G 4 HOH B 35 1035 67 HOH HOH . G 4 HOH B 36 1036 69 HOH HOH . G 4 HOH B 37 1037 70 HOH HOH . G 4 HOH B 38 1038 72 HOH HOH . G 4 HOH B 39 1039 73 HOH HOH . G 4 HOH B 40 1040 74 HOH HOH . G 4 HOH B 41 1041 75 HOH HOH . G 4 HOH B 42 1042 79 HOH HOH . G 4 HOH B 43 1043 80 HOH HOH . G 4 HOH B 44 1044 92 HOH HOH . G 4 HOH B 45 1045 93 HOH HOH . G 4 HOH B 46 1046 94 HOH HOH . G 4 HOH B 47 1047 119 HOH HOH . G 4 HOH B 48 1048 124 HOH HOH . G 4 HOH B 49 1049 142 HOH HOH . G 4 HOH B 50 1050 143 HOH HOH . G 4 HOH B 51 1051 144 HOH HOH . G 4 HOH B 52 1052 145 HOH HOH . G 4 HOH B 53 1053 146 HOH HOH . G 4 HOH B 54 1054 147 HOH HOH . G 4 HOH B 55 1055 148 HOH HOH . G 4 HOH B 56 1056 149 HOH HOH . G 4 HOH B 57 1057 150 HOH HOH . G 4 HOH B 58 1058 151 HOH HOH . G 4 HOH B 59 1059 152 HOH HOH . G 4 HOH B 60 1060 153 HOH HOH . G 4 HOH B 61 1061 154 HOH HOH . G 4 HOH B 62 1062 155 HOH HOH . G 4 HOH B 63 1063 156 HOH HOH . G 4 HOH B 64 1064 157 HOH HOH . G 4 HOH B 65 1065 158 HOH HOH . G 4 HOH B 66 1066 159 HOH HOH . G 4 HOH B 67 1067 160 HOH HOH . G 4 HOH B 68 1068 161 HOH HOH . G 4 HOH B 69 1069 162 HOH HOH . G 4 HOH B 70 1070 163 HOH HOH . G 4 HOH B 71 1071 164 HOH HOH . G 4 HOH B 72 1072 165 HOH HOH . G 4 HOH B 73 1073 166 HOH HOH . G 4 HOH B 74 1074 167 HOH HOH . G 4 HOH B 75 1075 168 HOH HOH . G 4 HOH B 76 1076 169 HOH HOH . G 4 HOH B 77 1077 170 HOH HOH . G 4 HOH B 78 1078 171 HOH HOH . G 4 HOH B 79 1079 172 HOH HOH . G 4 HOH B 80 1080 174 HOH HOH . G 4 HOH B 81 1081 175 HOH HOH . G 4 HOH B 82 1082 177 HOH HOH . G 4 HOH B 83 1083 179 HOH HOH . G 4 HOH B 84 1084 184 HOH HOH . G 4 HOH B 85 1085 185 HOH HOH . G 4 HOH B 86 1086 186 HOH HOH . G 4 HOH B 87 1087 187 HOH HOH . G 4 HOH B 88 1088 1 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 F F1 0F4 . . . E 3 22.069 10.254 6.621 1 37.62 ? F1 0F4 901 B 1 HETATM 2 C C2 0F4 . . . E 3 22.642 9.875 7.744 1 35.94 ? C2 0F4 901 B 1 HETATM 3 F F3 0F4 . . . E 3 21.949 10.376 8.755 1 44.55 ? F3 0F4 901 B 1 HETATM 4 F F4 0F4 . . . E 3 22.713 8.554 7.842 1 40.02 ? F4 0F4 901 B 1 HETATM 5 C C5 0F4 . . . E 3 24.031 10.396 7.681 1 35.31 ? C5 0F4 901 B 1 HETATM 6 C C6 0F4 . . . E 3 24.6 10.574 6.429 1 35.5 ? C6 0F4 901 B 1 HETATM 7 C C7 0F4 . . . E 3 25.892 11.066 6.333 1 36.71 ? C7 0F4 901 B 1 HETATM 8 C C8 0F4 . . . E 3 26.6 11.379 7.493 1 36.66 ? C8 0F4 901 B 1 HETATM 9 C C9 0F4 . . . E 3 26.025 11.213 8.742 1 37.37 ? C9 0F4 901 B 1 HETATM 10 N N10 0F4 . . . E 3 26.781 11.518 9.823 1 42.02 ? N10 0F4 901 B 1 HETATM 11 C C11 0F4 . . . E 3 26.556 11.145 11.086 1 39.19 ? C11 0F4 901 B 1 HETATM 12 O O12 0F4 . . . E 3 25.586 10.486 11.445 1 36.39 ? O12 0F4 901 B 1 HETATM 13 N N13 0F4 . . . E 3 27.464 11.574 11.957 1 39.69 ? N13 0F4 901 B 1 HETATM 14 C C14 0F4 . . . E 3 27.439 11.283 13.277 1 37.05 ? C14 0F4 901 B 1 HETATM 15 C C15 0F4 . . . E 3 28.621 10.78 13.799 1 42.39 ? C15 0F4 901 B 1 HETATM 16 C C16 0F4 . . . E 3 28.71 10.447 15.14 1 39.97 ? C16 0F4 901 B 1 HETATM 17 C C17 0F4 . . . E 3 27.613 10.642 15.964 1 37.93 ? C17 0F4 901 B 1 HETATM 18 C C18 0F4 . . . E 3 26.405 11.137 15.459 1 37.34 ? C18 0F4 901 B 1 HETATM 19 N N19 0F4 . . . E 3 25.287 11.324 16.224 1 34.7 ? N19 0F4 901 B 1 HETATM 20 C C20 0F4 . . . E 3 24.868 10.65 17.341 1 32.1 ? C20 0F4 901 B 1 HETATM 21 C C21 0F4 . . . E 3 25.514 9.528 17.871 1 33.15 ? C21 0F4 901 B 1 HETATM 22 C C22 0F4 . . . E 3 25.04 8.916 19.03 1 32 ? C22 0F4 901 B 1 HETATM 23 C C23 0F4 . . . E 3 23.909 9.441 19.642 1 31.88 ? C23 0F4 901 B 1 HETATM 24 C C24 0F4 . . . E 3 23.236 10.565 19.153 1 35.12 ? C24 0F4 901 B 1 HETATM 25 N N25 0F4 . . . E 3 22.152 10.878 19.944 1 31.69 ? N25 0F4 901 B 1 HETATM 26 C C26 0F4 . . . E 3 22.083 9.983 20.941 1 33.52 ? C26 0F4 901 B 1 HETATM 27 O O27 0F4 . . . E 3 21.182 9.998 21.859 1 35.35 ? O27 0F4 901 B 1 HETATM 28 C C28 0F4 . . . E 3 23.189 9.026 20.858 1 31.56 ? C28 0F4 901 B 1 HETATM 29 C C29 0F4 . . . E 3 23.616 7.849 21.657 1 34.45 ? C29 0F4 901 B 1 HETATM 30 C C30 0F4 . . . E 3 22.896 7.418 22.885 1 36.79 ? C30 0F4 901 B 1 HETATM 31 C C31 0F4 . . . E 3 23.294 6.325 23.635 1 42.68 ? C31 0F4 901 B 1 HETATM 32 C C32 0F4 . . . E 3 22.346 6.293 24.65 1 37.32 ? C32 0F4 901 B 1 HETATM 33 C C33 0F4 . . . E 3 21.448 7.334 24.452 1 37.76 ? C33 0F4 901 B 1 HETATM 34 N N34 0F4 . . . E 3 21.805 8.026 23.34 1 36.28 ? N34 0F4 901 B 1 HETATM 35 C C36 0F4 . . . E 3 23.733 11.145 17.981 1 31.86 ? C36 0F4 901 B 1 HETATM 36 C C37 0F4 . . . E 3 26.334 11.463 14.106 1 35.6 ? C37 0F4 901 B 1 HETATM 37 C C38 0F4 . . . E 3 24.728 10.712 8.834 1 33.76 ? C38 0F4 901 B 1 # _model_server_stats.io_time_ms 45 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 37 #