data_3DGC # _model_server_result.job_id uxtXBsyPmxfxSv5hBvDTeg _model_server_result.datetime_utc '2024-10-19 11:39:35' _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 3dgc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"U","auth_seq_id":3}' # _entry.id 3DGC # _exptl.entry_id 3DGC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 238.029 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'URANIUM ATOM' _entity.pdbx_number_of_molecules 11 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 100.89 _cell.angle_gamma 90 _cell.entry_id 3DGC _cell.length_a 54.509 _cell.length_b 75.48 _cell.length_c 101.14 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3DGC _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 PISA tetrameric 4 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,I,J,K,L,W,X 1 1 C,D,M,N,O,P,Q,R,S,T,U,V,Y,Z 2 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z 3 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 ? 4 F N N ? 4 G N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 L N N ? 4 P N N ? 4 Q N N ? 4 R N N ? 4 U N N ? 4 V N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O6 HO6 . sing 4 ? 3 5 1 FUC NAG C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n E NAG 1 A 1 NAG R 226 NAG 3 n E NAG 2 A 2 NAG R 227 NAG 3 n E BMA 3 A 3 BMA R 228 BMA 3 n E MAN 4 A 4 MAN R 229 MAN 3 n E FUC 5 A 5 FUC R 230 FUC # 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 2 L CYS 40 1_555 A SG CYS 94 L CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 51 L CYS 89 1_555 A SG CYS 140 L CYS 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 B SG CYS 55 R CYS 71 1_555 B SG CYS 63 R CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 B SG CYS 112 R CYS 128 1_555 B SG CYS 201 R CYS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 C SG CYS 2 M CYS 40 1_555 C SG CYS 94 M CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 C SG CYS 51 M CYS 89 1_555 C SG CYS 140 M CYS 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf7 D SG CYS 55 S CYS 71 1_555 D SG CYS 63 S CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf8 D SG CYS 112 S CYS 128 1_555 D SG CYS 201 S CYS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? covale ? covale1 B ND2 ASN 156 R ASN 172 1_555 E C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale2 E O4 NAG . A NAG 1 1_555 E C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.392 ? covale ? covale3 E O6 NAG . A NAG 1 1_555 E C1 FUC . A FUC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.395 ? covale ? covale4 E O4 NAG . A NAG 2 1_555 E C1 BMA . A BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.389 ? covale ? covale5 E O6 BMA . A BMA 3 1_555 E C1 MAN . A MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.406 ? # _chem_comp.formula U _chem_comp.formula_weight 238.029 _chem_comp.id U1 _chem_comp.mon_nstd_flag . _chem_comp.name 'URANIUM ATOM' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3DGC _atom_sites.fract_transf_matrix[1][1] 0.018346 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003529 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013249 _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] 0.010069 _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 F 4 U1 L 1 8 8 U1 U1 . G 4 U1 L 1 11 11 U1 U1 . H 5 CL R 1 3 3 CL CL . I 4 U1 R 1 2 2 U1 U1 . J 4 U1 R 1 4 4 U1 U1 . K 4 U1 R 1 6 6 U1 U1 . L 4 U1 R 1 7 7 U1 U1 . M 6 IUM M 1 1 1 IUM IUM . N 7 ACT M 1 180 180 ACT ACT . O 7 ACT M 1 2 2 ACT ACT . P 4 U1 M 1 9 9 U1 U1 . Q 4 U1 M 1 10 10 U1 U1 . R 4 U1 M 1 12 12 U1 U1 . S 5 CL S 1 1 1 CL CL . T 5 CL S 1 2 2 CL CL . U 4 U1 S 1 3 3 U1 U1 . V 4 U1 S 1 5 5 U1 U1 . W 8 HOH L 1 180 180 HOH HOH . W 8 HOH L 2 181 181 HOH HOH . W 8 HOH L 3 182 182 HOH HOH . W 8 HOH L 4 183 183 HOH HOH . W 8 HOH L 5 184 184 HOH HOH . W 8 HOH L 6 185 185 HOH HOH . W 8 HOH L 7 186 186 HOH HOH . W 8 HOH L 8 187 187 HOH HOH . W 8 HOH L 9 188 188 HOH HOH . W 8 HOH L 10 189 189 HOH HOH . W 8 HOH L 11 190 190 HOH HOH . W 8 HOH L 12 191 191 HOH HOH . W 8 HOH L 13 192 192 HOH HOH . X 8 HOH R 1 232 231 HOH HOH . X 8 HOH R 2 233 232 HOH HOH . X 8 HOH R 3 234 233 HOH HOH . X 8 HOH R 4 235 234 HOH HOH . X 8 HOH R 5 236 235 HOH HOH . X 8 HOH R 6 237 236 HOH HOH . X 8 HOH R 7 238 237 HOH HOH . X 8 HOH R 8 239 238 HOH HOH . X 8 HOH R 9 240 239 HOH HOH . X 8 HOH R 10 241 240 HOH HOH . X 8 HOH R 11 242 241 HOH HOH . X 8 HOH R 12 243 242 HOH HOH . X 8 HOH R 13 244 243 HOH HOH . X 8 HOH R 14 245 244 HOH HOH . X 8 HOH R 15 246 245 HOH HOH . X 8 HOH R 16 247 246 HOH HOH . X 8 HOH R 17 248 247 HOH HOH . X 8 HOH R 18 249 248 HOH HOH . X 8 HOH R 19 250 249 HOH HOH . X 8 HOH R 20 251 250 HOH HOH . X 8 HOH R 21 252 251 HOH HOH . X 8 HOH R 22 253 252 HOH HOH . X 8 HOH R 23 254 253 HOH HOH . X 8 HOH R 24 255 254 HOH HOH . X 8 HOH R 25 256 255 HOH HOH . X 8 HOH R 26 257 256 HOH HOH . X 8 HOH R 27 258 257 HOH HOH . X 8 HOH R 28 259 258 HOH HOH . X 8 HOH R 29 260 259 HOH HOH . X 8 HOH R 30 261 260 HOH HOH . X 8 HOH R 31 262 261 HOH HOH . X 8 HOH R 32 263 262 HOH HOH . X 8 HOH R 33 264 263 HOH HOH . X 8 HOH R 34 265 264 HOH HOH . X 8 HOH R 35 266 265 HOH HOH . X 8 HOH R 36 267 266 HOH HOH . X 8 HOH R 37 268 267 HOH HOH . X 8 HOH R 38 269 268 HOH HOH . X 8 HOH R 39 270 269 HOH HOH . X 8 HOH R 40 271 270 HOH HOH . X 8 HOH R 41 272 271 HOH HOH . Y 8 HOH M 1 181 181 HOH HOH . Y 8 HOH M 2 182 182 HOH HOH . Y 8 HOH M 3 183 183 HOH HOH . Y 8 HOH M 4 184 184 HOH HOH . Y 8 HOH M 5 185 185 HOH HOH . Y 8 HOH M 6 186 186 HOH HOH . Y 8 HOH M 7 187 187 HOH HOH . Y 8 HOH M 8 188 188 HOH HOH . Y 8 HOH M 9 189 189 HOH HOH . Y 8 HOH M 10 190 190 HOH HOH . Y 8 HOH M 11 191 191 HOH HOH . Y 8 HOH M 12 192 192 HOH HOH . Y 8 HOH M 13 193 193 HOH HOH . Y 8 HOH M 14 194 194 HOH HOH . Y 8 HOH M 15 195 195 HOH HOH . Y 8 HOH M 16 196 196 HOH HOH . Y 8 HOH M 17 197 197 HOH HOH . Y 8 HOH M 18 198 198 HOH HOH . Y 8 HOH M 19 199 199 HOH HOH . Y 8 HOH M 20 200 200 HOH HOH . Y 8 HOH M 21 201 201 HOH HOH . Y 8 HOH M 22 202 202 HOH HOH . Y 8 HOH M 23 203 203 HOH HOH . Y 8 HOH M 24 204 204 HOH HOH . Y 8 HOH M 25 205 205 HOH HOH . Y 8 HOH M 26 206 206 HOH HOH . Y 8 HOH M 27 207 207 HOH HOH . Y 8 HOH M 28 208 208 HOH HOH . Y 8 HOH M 29 209 209 HOH HOH . Y 8 HOH M 30 210 210 HOH HOH . Y 8 HOH M 31 211 211 HOH HOH . Y 8 HOH M 32 212 212 HOH HOH . Y 8 HOH M 33 213 213 HOH HOH . Y 8 HOH M 34 214 214 HOH HOH . Y 8 HOH M 35 215 215 HOH HOH . Y 8 HOH M 36 216 216 HOH HOH . Y 8 HOH M 37 217 217 HOH HOH . Y 8 HOH M 38 218 218 HOH HOH . Y 8 HOH M 39 219 219 HOH HOH . Y 8 HOH M 40 220 220 HOH HOH . Y 8 HOH M 41 221 221 HOH HOH . Y 8 HOH M 42 222 222 HOH HOH . Y 8 HOH M 43 223 223 HOH HOH . Y 8 HOH M 44 224 224 HOH HOH . Y 8 HOH M 45 225 225 HOH HOH . Y 8 HOH M 46 226 226 HOH HOH . Y 8 HOH M 47 227 227 HOH HOH . Z 8 HOH S 1 227 226 HOH HOH . Z 8 HOH S 2 228 227 HOH HOH . Z 8 HOH S 3 229 228 HOH HOH . Z 8 HOH S 4 230 229 HOH HOH . Z 8 HOH S 5 231 230 HOH HOH . Z 8 HOH S 6 232 231 HOH HOH . Z 8 HOH S 7 233 232 HOH HOH . Z 8 HOH S 8 234 233 HOH HOH . Z 8 HOH S 9 235 234 HOH HOH . Z 8 HOH S 10 236 235 HOH HOH . Z 8 HOH S 11 237 236 HOH HOH . Z 8 HOH S 12 238 237 HOH HOH . Z 8 HOH S 13 239 238 HOH HOH . Z 8 HOH S 14 240 239 HOH HOH . Z 8 HOH S 15 241 240 HOH HOH . Z 8 HOH S 16 242 241 HOH HOH . Z 8 HOH S 17 243 242 HOH HOH . Z 8 HOH S 18 244 243 HOH HOH . Z 8 HOH S 19 245 244 HOH HOH . Z 8 HOH S 20 246 245 HOH HOH . Z 8 HOH S 21 247 246 HOH HOH . Z 8 HOH S 22 248 247 HOH HOH . Z 8 HOH S 23 249 248 HOH HOH . Z 8 HOH S 24 250 249 HOH HOH . Z 8 HOH S 25 251 250 HOH HOH . Z 8 HOH S 26 252 251 HOH HOH . Z 8 HOH S 27 253 252 HOH HOH . Z 8 HOH S 28 254 253 HOH HOH . Z 8 HOH S 29 255 254 HOH HOH . Z 8 HOH S 30 256 255 HOH HOH . Z 8 HOH S 31 257 256 HOH HOH . Z 8 HOH S 32 258 257 HOH HOH . Z 8 HOH S 33 259 258 HOH HOH . Z 8 HOH S 34 260 259 HOH HOH . Z 8 HOH S 35 261 260 HOH HOH . Z 8 HOH S 36 262 261 HOH HOH . Z 8 HOH S 37 263 262 HOH HOH . Z 8 HOH S 38 264 263 HOH HOH . Z 8 HOH S 39 265 264 HOH HOH . Z 8 HOH S 40 266 265 HOH HOH . Z 8 HOH S 41 267 266 HOH HOH . Z 8 HOH S 42 268 267 HOH HOH . Z 8 HOH S 43 269 268 HOH HOH . Z 8 HOH S 44 270 269 HOH HOH . Z 8 HOH S 45 271 270 HOH HOH . Z 8 HOH S 46 272 271 HOH HOH . Z 8 HOH S 47 273 272 HOH HOH . Z 8 HOH S 48 274 273 HOH HOH . Z 8 HOH S 49 275 274 HOH HOH . Z 8 HOH S 50 276 275 HOH HOH . Z 8 HOH S 51 277 276 HOH HOH . Z 8 HOH S 52 278 277 HOH HOH . Z 8 HOH S 53 279 278 HOH HOH . Z 8 HOH S 54 280 279 HOH HOH . Z 8 HOH S 55 281 280 HOH HOH . Z 8 HOH S 56 282 281 HOH HOH . Z 8 HOH S 57 283 282 HOH HOH . Z 8 HOH S 58 284 283 HOH HOH . Z 8 HOH S 59 285 284 HOH HOH . Z 8 HOH S 60 286 285 HOH HOH . Z 8 HOH S 61 287 286 HOH HOH . Z 8 HOH S 62 288 287 HOH HOH . Z 8 HOH S 63 289 288 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol U _atom_site.label_atom_id U _atom_site.label_comp_id U1 _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id U _atom_site.label_entity_id 4 _atom_site.Cartn_x 54.632 _atom_site.Cartn_y 24.993 _atom_site.Cartn_z -2.789 _atom_site.occupancy 0.82 _atom_site.B_iso_or_equiv 66.08 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id U _atom_site.auth_comp_id U1 _atom_site.auth_seq_id 3 _atom_site.auth_asym_id S _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 1 #