data_3U9A # _model_server_result.job_id q8E3Bldg9uhs7oBWf6gWSw _model_server_result.datetime_utc '2024-12-21 12:45:16' _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 3u9a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":6}' # _entry.id 3U9A # _exptl.entry_id 3U9A _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 100.1 _cell.angle_gamma 90 _cell.entry_id 3U9A _cell.length_a 69.9 _cell.length_b 71.2 _cell.length_c 72.6 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3U9A _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,I,J,K,L,M _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 8 I N N ? 8 J N 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 disulf ? disulf1 A SG CYS 9 L CYS 1 1_555 B SG CYS 119 H CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf2 B SG CYS 28 H CYS 42 1_555 B SG CYS 44 H CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf3 B SG CYS 173 H CYS 168 1_555 B SG CYS 187 H CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 B SG CYS 201 H CYS 191 1_555 B SG CYS 231 H CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? covale ? covale1 B ND2 ASN 53 H ASN 60 1_555 D C1 NAG . H NAG 260 1_555 G ? ? G ? ? ? ? ? ? ? ? 1.428 ? covale ? covale2 C C GLU 10 I GLU 62 1_555 C N TYS 11 I TYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 C C TYS 11 I TYS 63 1_555 C N LEU 12 I LEU 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3U9A _atom_sites.fract_transf_matrix[1][1] 0.014306 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002548 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014045 _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] 0.013991 _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 NAG H 1 260 60 NAG XE5 G E 5 S33 H 1 1 1 S33 S33 . F 6 GOL H 1 2 2 GOL GOL . G 6 GOL H 1 3 3 GOL GOL . H 7 PO4 H 1 4 4 PO4 PO4 . I 8 NA H 1 5 5 NA NA . J 8 NA H 1 6 6 NA NA . K 9 HOH L 1 1001 18 HOH HOH . K 9 HOH L 2 1002 10 HOH HOH . K 9 HOH L 3 1003 12 HOH HOH . K 9 HOH L 4 1004 23 HOH HOH . K 9 HOH L 5 1005 42 HOH HOH . K 9 HOH L 6 1006 43 HOH HOH . K 9 HOH L 7 1007 59 HOH HOH . K 9 HOH L 8 1008 65 HOH HOH . K 9 HOH L 9 1009 71 HOH HOH . K 9 HOH L 10 1010 83 HOH HOH . K 9 HOH L 11 1011 104 HOH HOH . K 9 HOH L 12 1012 108 HOH HOH . K 9 HOH L 13 1013 117 HOH HOH . K 9 HOH L 14 1014 118 HOH HOH . K 9 HOH L 15 1015 132 HOH HOH . K 9 HOH L 16 1016 133 HOH HOH . K 9 HOH L 17 1017 138 HOH HOH . K 9 HOH L 18 1018 148 HOH HOH . K 9 HOH L 19 1019 154 HOH HOH . K 9 HOH L 20 1020 157 HOH HOH . K 9 HOH L 21 1021 160 HOH HOH . K 9 HOH L 22 1022 167 HOH HOH . K 9 HOH L 23 1023 171 HOH HOH . K 9 HOH L 24 1024 177 HOH HOH . K 9 HOH L 25 1025 190 HOH HOH . K 9 HOH L 26 1026 192 HOH HOH . K 9 HOH L 27 1027 196 HOH HOH . K 9 HOH L 28 1028 211 HOH HOH . K 9 HOH L 29 1029 214 HOH HOH . K 9 HOH L 30 1030 228 HOH HOH . K 9 HOH L 31 1031 239 HOH HOH . K 9 HOH L 32 1032 242 HOH HOH . K 9 HOH L 33 1033 253 HOH HOH . L 9 HOH H 1 1034 7 HOH HOH . L 9 HOH H 2 1035 8 HOH HOH . L 9 HOH H 3 1036 9 HOH HOH . L 9 HOH H 4 1037 11 HOH HOH . L 9 HOH H 5 1038 13 HOH HOH . L 9 HOH H 6 1039 14 HOH HOH . L 9 HOH H 7 1040 15 HOH HOH . L 9 HOH H 8 1041 149 HOH HOH . L 9 HOH H 9 1042 218 HOH HOH . L 9 HOH H 10 1043 248 HOH HOH . L 9 HOH H 11 1044 249 HOH HOH . L 9 HOH H 12 1045 250 HOH HOH . L 9 HOH H 13 1046 251 HOH HOH . L 9 HOH H 14 1047 252 HOH HOH . L 9 HOH H 15 1048 1 HOH HOH . L 9 HOH H 16 1049 254 HOH HOH . L 9 HOH H 17 1050 2 HOH HOH . L 9 HOH H 18 1051 3 HOH HOH . L 9 HOH H 19 1052 4 HOH HOH . L 9 HOH H 20 1053 5 HOH HOH . L 9 HOH H 21 1054 6 HOH HOH . L 9 HOH H 22 1055 16 HOH HOH . L 9 HOH H 23 1056 17 HOH HOH . L 9 HOH H 24 1057 19 HOH HOH . L 9 HOH H 25 1058 20 HOH HOH . L 9 HOH H 26 1059 21 HOH HOH . L 9 HOH H 27 1060 22 HOH HOH . L 9 HOH H 28 1061 24 HOH HOH . L 9 HOH H 29 1062 25 HOH HOH . L 9 HOH H 30 1063 26 HOH HOH . L 9 HOH H 31 1064 27 HOH HOH . L 9 HOH H 32 1065 28 HOH HOH . L 9 HOH H 33 1066 29 HOH HOH . L 9 HOH H 34 1067 30 HOH HOH . L 9 HOH H 35 1068 31 HOH HOH . L 9 HOH H 36 1069 32 HOH HOH . L 9 HOH H 37 1070 33 HOH HOH . L 9 HOH H 38 1071 34 HOH HOH . L 9 HOH H 39 1072 35 HOH HOH . L 9 HOH H 40 1073 36 HOH HOH . L 9 HOH H 41 1074 37 HOH HOH . L 9 HOH H 42 1075 38 HOH HOH . L 9 HOH H 43 1076 39 HOH HOH . L 9 HOH H 44 1077 40 HOH HOH . L 9 HOH H 45 1078 41 HOH HOH . L 9 HOH H 46 1079 44 HOH HOH . L 9 HOH H 47 1080 45 HOH HOH . L 9 HOH H 48 1081 46 HOH HOH . L 9 HOH H 49 1082 47 HOH HOH . L 9 HOH H 50 1083 48 HOH HOH . L 9 HOH H 51 1084 49 HOH HOH . L 9 HOH H 52 1085 50 HOH HOH . L 9 HOH H 53 1086 51 HOH HOH . L 9 HOH H 54 1087 52 HOH HOH . L 9 HOH H 55 1088 53 HOH HOH . L 9 HOH H 56 1089 54 HOH HOH . L 9 HOH H 57 1090 55 HOH HOH . L 9 HOH H 58 1091 56 HOH HOH . L 9 HOH H 59 1092 57 HOH HOH . L 9 HOH H 60 1093 58 HOH HOH . L 9 HOH H 61 1094 60 HOH HOH . L 9 HOH H 62 1095 61 HOH HOH . L 9 HOH H 63 1096 62 HOH HOH . L 9 HOH H 64 1097 63 HOH HOH . L 9 HOH H 65 1098 64 HOH HOH . L 9 HOH H 66 1099 66 HOH HOH . L 9 HOH H 67 1100 67 HOH HOH . L 9 HOH H 68 1101 68 HOH HOH . L 9 HOH H 69 1102 69 HOH HOH . L 9 HOH H 70 1103 70 HOH HOH . L 9 HOH H 71 1104 72 HOH HOH . L 9 HOH H 72 1105 73 HOH HOH . L 9 HOH H 73 1106 74 HOH HOH . L 9 HOH H 74 1107 75 HOH HOH . L 9 HOH H 75 1108 76 HOH HOH . L 9 HOH H 76 1109 77 HOH HOH . L 9 HOH H 77 1110 78 HOH HOH . L 9 HOH H 78 1111 79 HOH HOH . L 9 HOH H 79 1112 80 HOH HOH . L 9 HOH H 80 1113 81 HOH HOH . L 9 HOH H 81 1114 82 HOH HOH . L 9 HOH H 82 1115 84 HOH HOH . L 9 HOH H 83 1116 86 HOH HOH . L 9 HOH H 84 1117 87 HOH HOH . L 9 HOH H 85 1118 88 HOH HOH . L 9 HOH H 86 1119 89 HOH HOH . L 9 HOH H 87 1120 90 HOH HOH . L 9 HOH H 88 1121 91 HOH HOH . L 9 HOH H 89 1122 92 HOH HOH . L 9 HOH H 90 1123 93 HOH HOH . L 9 HOH H 91 1124 94 HOH HOH . L 9 HOH H 92 1125 95 HOH HOH . L 9 HOH H 93 1126 98 HOH HOH . L 9 HOH H 94 1127 99 HOH HOH . L 9 HOH H 95 1128 100 HOH HOH . L 9 HOH H 96 1129 101 HOH HOH . L 9 HOH H 97 1130 102 HOH HOH . L 9 HOH H 98 1131 103 HOH HOH . L 9 HOH H 99 1132 105 HOH HOH . L 9 HOH H 100 1133 106 HOH HOH . L 9 HOH H 101 1134 107 HOH HOH . L 9 HOH H 102 1135 109 HOH HOH . L 9 HOH H 103 1136 110 HOH HOH . L 9 HOH H 104 1137 111 HOH HOH . L 9 HOH H 105 1138 112 HOH HOH . L 9 HOH H 106 1139 113 HOH HOH . L 9 HOH H 107 1140 114 HOH HOH . L 9 HOH H 108 1141 115 HOH HOH . L 9 HOH H 109 1142 116 HOH HOH . L 9 HOH H 110 1143 119 HOH HOH . L 9 HOH H 111 1144 120 HOH HOH . L 9 HOH H 112 1145 121 HOH HOH . L 9 HOH H 113 1146 122 HOH HOH . L 9 HOH H 114 1147 123 HOH HOH . L 9 HOH H 115 1148 124 HOH HOH . L 9 HOH H 116 1149 125 HOH HOH . L 9 HOH H 117 1150 126 HOH HOH . L 9 HOH H 118 1151 127 HOH HOH . L 9 HOH H 119 1152 128 HOH HOH . L 9 HOH H 120 1153 129 HOH HOH . L 9 HOH H 121 1154 130 HOH HOH . L 9 HOH H 122 1155 131 HOH HOH . L 9 HOH H 123 1156 134 HOH HOH . L 9 HOH H 124 1157 135 HOH HOH . L 9 HOH H 125 1158 136 HOH HOH . L 9 HOH H 126 1159 137 HOH HOH . L 9 HOH H 127 1160 139 HOH HOH . L 9 HOH H 128 1161 140 HOH HOH . L 9 HOH H 129 1162 141 HOH HOH . L 9 HOH H 130 1163 142 HOH HOH . L 9 HOH H 131 1164 143 HOH HOH . L 9 HOH H 132 1165 144 HOH HOH . L 9 HOH H 133 1166 145 HOH HOH . L 9 HOH H 134 1167 146 HOH HOH . L 9 HOH H 135 1168 147 HOH HOH . L 9 HOH H 136 1169 150 HOH HOH . L 9 HOH H 137 1170 151 HOH HOH . L 9 HOH H 138 1171 152 HOH HOH . L 9 HOH H 139 1172 153 HOH HOH . L 9 HOH H 140 1173 155 HOH HOH . L 9 HOH H 141 1174 156 HOH HOH . L 9 HOH H 142 1175 158 HOH HOH . L 9 HOH H 143 1176 159 HOH HOH . L 9 HOH H 144 1177 161 HOH HOH . L 9 HOH H 145 1178 162 HOH HOH . L 9 HOH H 146 1179 163 HOH HOH . L 9 HOH H 147 1180 164 HOH HOH . L 9 HOH H 148 1181 166 HOH HOH . L 9 HOH H 149 1182 168 HOH HOH . L 9 HOH H 150 1183 169 HOH HOH . L 9 HOH H 151 1184 170 HOH HOH . L 9 HOH H 152 1185 172 HOH HOH . L 9 HOH H 153 1186 173 HOH HOH . L 9 HOH H 154 1187 174 HOH HOH . L 9 HOH H 155 1188 175 HOH HOH . L 9 HOH H 156 1189 176 HOH HOH . L 9 HOH H 157 1190 178 HOH HOH . L 9 HOH H 158 1191 179 HOH HOH . L 9 HOH H 159 1192 180 HOH HOH . L 9 HOH H 160 1193 181 HOH HOH . L 9 HOH H 161 1194 182 HOH HOH . L 9 HOH H 162 1195 183 HOH HOH . L 9 HOH H 163 1196 184 HOH HOH . L 9 HOH H 164 1197 185 HOH HOH . L 9 HOH H 165 1198 187 HOH HOH . L 9 HOH H 166 1199 189 HOH HOH . L 9 HOH H 167 1200 191 HOH HOH . L 9 HOH H 168 1201 193 HOH HOH . L 9 HOH H 169 1202 194 HOH HOH . L 9 HOH H 170 1203 195 HOH HOH . L 9 HOH H 171 1204 197 HOH HOH . L 9 HOH H 172 1205 198 HOH HOH . L 9 HOH H 173 1206 199 HOH HOH . L 9 HOH H 174 1207 200 HOH HOH . L 9 HOH H 175 1208 201 HOH HOH . L 9 HOH H 176 1209 202 HOH HOH . L 9 HOH H 177 1210 203 HOH HOH . L 9 HOH H 178 1211 204 HOH HOH . L 9 HOH H 179 1212 205 HOH HOH . L 9 HOH H 180 1213 206 HOH HOH . L 9 HOH H 181 1214 207 HOH HOH . L 9 HOH H 182 1215 208 HOH HOH . L 9 HOH H 183 1216 209 HOH HOH . L 9 HOH H 184 1217 210 HOH HOH . L 9 HOH H 185 1218 212 HOH HOH . L 9 HOH H 186 1219 213 HOH HOH . L 9 HOH H 187 1220 215 HOH HOH . L 9 HOH H 188 1221 216 HOH HOH . L 9 HOH H 189 1222 217 HOH HOH . L 9 HOH H 190 1223 219 HOH HOH . L 9 HOH H 191 1224 220 HOH HOH . L 9 HOH H 192 1225 222 HOH HOH . L 9 HOH H 193 1226 223 HOH HOH . L 9 HOH H 194 1227 224 HOH HOH . L 9 HOH H 195 1228 225 HOH HOH . L 9 HOH H 196 1229 226 HOH HOH . L 9 HOH H 197 1230 227 HOH HOH . L 9 HOH H 198 1231 229 HOH HOH . L 9 HOH H 199 1232 230 HOH HOH . L 9 HOH H 200 1233 231 HOH HOH . L 9 HOH H 201 1234 232 HOH HOH . L 9 HOH H 202 1235 233 HOH HOH . L 9 HOH H 203 1236 234 HOH HOH . L 9 HOH H 204 1237 235 HOH HOH . L 9 HOH H 205 1238 236 HOH HOH . L 9 HOH H 206 1239 237 HOH HOH . L 9 HOH H 207 1240 238 HOH HOH . L 9 HOH H 208 1241 240 HOH HOH . L 9 HOH H 209 1242 241 HOH HOH . L 9 HOH H 210 1243 243 HOH HOH . L 9 HOH H 211 1244 244 HOH HOH . L 9 HOH H 212 1245 245 HOH HOH . L 9 HOH H 213 1246 246 HOH HOH . L 9 HOH H 214 1247 247 HOH HOH . M 9 HOH I 1 1248 85 HOH HOH . M 9 HOH I 2 1249 96 HOH HOH . M 9 HOH I 3 1250 97 HOH HOH . M 9 HOH I 4 1251 165 HOH HOH . M 9 HOH I 5 1252 186 HOH HOH . M 9 HOH I 6 1253 221 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id J _atom_site.label_entity_id 8 _atom_site.Cartn_x 5.947 _atom_site.Cartn_y -12.875 _atom_site.Cartn_z 30.282 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 20.79 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 6 _atom_site.auth_asym_id H _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #