data_3OAC # _model_server_result.job_id j_z2mvXBdWovYdhZuDSgEA _model_server_result.datetime_utc '2024-11-24 13:40:54' _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 3oac # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":2002}' # _entry.id 3OAC # _exptl.entry_id 3OAC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 262.158 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIMETHYLALLYL S-THIOLODIPHOSPHATE' _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 90 _cell.angle_gamma 90 _cell.entry_id 3OAC _cell.length_a 92.842 _cell.length_b 110.11 _cell.length_c 111.5 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3OAC _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 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 ? tetrameric 4 author_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 PISA dimeric 2 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,C,D,E,F,G,H,I,J,K,L 1 1 A,B,I,J 2 1 C,D,E,F,G,H,K,L 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 metalc ? metalc1 D OD1 ASP 83 D ASP 83 1_555 G MG MG . D MG 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc2 D OD2 ASP 83 D ASP 83 1_555 H MG MG . D MG 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc3 D OD2 ASP 89 D ASP 89 1_555 G MG MG . D MG 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc4 D OD1 ASP 89 D ASP 89 1_555 G MG MG . D MG 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.936 ? metalc ? metalc5 D OD2 ASP 89 D ASP 89 1_555 H MG MG . D MG 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? metalc ? metalc6 F O7 DST . D DST 2002 1_555 G MG MG . D MG 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.582 ? metalc ? metalc7 F O4 DST . D DST 2002 1_555 H MG MG . D MG 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? metalc ? metalc8 F O7 DST . D DST 2002 1_555 H MG MG . D MG 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? # _chem_comp.formula 'C5 H12 O6 P2 S' _chem_comp.formula_weight 262.158 _chem_comp.id DST _chem_comp.mon_nstd_flag . _chem_comp.name 'DIMETHYLALLYL S-THIOLODIPHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'DMASPP;DMAPP;DMADP;Dimethylallyl pyrophosphate;dimethylallyl diphosphate;isoprenyl pyrophosphate' # 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 O4 P1 DST sing 83 n n O4 HO4 DST sing 84 n n P1 O6 DST sing 85 n n P1 O5 DST doub 86 n n P1 O2 DST sing 87 n n O6 HO6 DST sing 88 n n O2 P3 DST sing 89 n n P3 O8 DST sing 90 n n P3 O7 DST doub 91 n n P3 S9 DST sing 92 n n O8 HO8 DST sing 93 n n S9 C10 DST sing 94 n n C10 C11 DST sing 95 n n C10 H101 DST sing 96 n n C10 H102 DST sing 97 n n C11 C12 DST doub 98 n n C11 H111 DST sing 99 n n C12 C13 DST sing 100 n n C12 C14 DST sing 101 n n C13 H131 DST sing 102 n n C13 H132 DST sing 103 n n C13 H133 DST sing 104 n n C14 H141 DST sing 105 n n C14 H142 DST sing 106 n n C14 H143 DST sing 107 n n # _atom_sites.entry_id 3OAC _atom_sites.fract_transf_matrix[1][1] 0.010771 _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] 0.009082 _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] 0.008969 _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 E 3 IPE D 1 2001 2001 IPE IPE . F 4 DST D 1 2002 2002 DST DST . G 5 MG D 1 3001 3001 MG MG . H 5 MG D 1 3002 3002 MG MG . I 6 HOH A 1 296 296 HOH HOH . I 6 HOH A 2 297 297 HOH HOH . I 6 HOH A 3 298 298 HOH HOH . I 6 HOH A 4 299 299 HOH HOH . I 6 HOH A 5 300 300 HOH HOH . I 6 HOH A 6 301 301 HOH HOH . I 6 HOH A 7 302 302 HOH HOH . I 6 HOH A 8 303 303 HOH HOH . I 6 HOH A 9 304 304 HOH HOH . I 6 HOH A 10 305 305 HOH HOH . I 6 HOH A 11 306 306 HOH HOH . I 6 HOH A 12 307 307 HOH HOH . I 6 HOH A 13 308 308 HOH HOH . I 6 HOH A 14 309 309 HOH HOH . I 6 HOH A 15 310 310 HOH HOH . I 6 HOH A 16 311 311 HOH HOH . I 6 HOH A 17 312 312 HOH HOH . I 6 HOH A 18 313 313 HOH HOH . I 6 HOH A 19 314 314 HOH HOH . I 6 HOH A 20 315 315 HOH HOH . I 6 HOH A 21 316 316 HOH HOH . I 6 HOH A 22 317 317 HOH HOH . I 6 HOH A 23 318 318 HOH HOH . I 6 HOH A 24 319 319 HOH HOH . I 6 HOH A 25 320 320 HOH HOH . I 6 HOH A 26 321 321 HOH HOH . I 6 HOH A 27 322 322 HOH HOH . I 6 HOH A 28 323 323 HOH HOH . I 6 HOH A 29 324 324 HOH HOH . I 6 HOH A 30 325 325 HOH HOH . I 6 HOH A 31 326 326 HOH HOH . I 6 HOH A 32 327 327 HOH HOH . I 6 HOH A 33 328 328 HOH HOH . I 6 HOH A 34 329 329 HOH HOH . I 6 HOH A 35 330 330 HOH HOH . I 6 HOH A 36 331 331 HOH HOH . I 6 HOH A 37 332 332 HOH HOH . I 6 HOH A 38 333 333 HOH HOH . I 6 HOH A 39 334 334 HOH HOH . I 6 HOH A 40 335 335 HOH HOH . I 6 HOH A 41 336 336 HOH HOH . I 6 HOH A 42 337 337 HOH HOH . I 6 HOH A 43 338 338 HOH HOH . I 6 HOH A 44 339 339 HOH HOH . I 6 HOH A 45 340 340 HOH HOH . I 6 HOH A 46 341 341 HOH HOH . I 6 HOH A 47 342 342 HOH HOH . I 6 HOH A 48 343 343 HOH HOH . I 6 HOH A 49 344 344 HOH HOH . I 6 HOH A 50 345 345 HOH HOH . I 6 HOH A 51 346 346 HOH HOH . I 6 HOH A 52 347 347 HOH HOH . I 6 HOH A 53 348 348 HOH HOH . I 6 HOH A 54 349 349 HOH HOH . I 6 HOH A 55 350 350 HOH HOH . I 6 HOH A 56 352 352 HOH HOH . J 6 HOH B 1 85 85 HOH HOH . J 6 HOH B 2 89 89 HOH HOH . J 6 HOH B 3 91 91 HOH HOH . J 6 HOH B 4 275 275 HOH HOH . J 6 HOH B 5 276 276 HOH HOH . J 6 HOH B 6 277 277 HOH HOH . J 6 HOH B 7 278 278 HOH HOH . J 6 HOH B 8 279 279 HOH HOH . J 6 HOH B 9 280 280 HOH HOH . J 6 HOH B 10 281 281 HOH HOH . J 6 HOH B 11 282 282 HOH HOH . J 6 HOH B 12 283 283 HOH HOH . J 6 HOH B 13 284 284 HOH HOH . J 6 HOH B 14 285 285 HOH HOH . J 6 HOH B 15 286 286 HOH HOH . J 6 HOH B 16 287 287 HOH HOH . J 6 HOH B 17 288 288 HOH HOH . J 6 HOH B 18 289 289 HOH HOH . J 6 HOH B 19 290 290 HOH HOH . J 6 HOH B 20 291 291 HOH HOH . J 6 HOH B 21 292 292 HOH HOH . J 6 HOH B 22 293 293 HOH HOH . J 6 HOH B 23 294 294 HOH HOH . J 6 HOH B 24 295 295 HOH HOH . J 6 HOH B 25 296 296 HOH HOH . J 6 HOH B 26 297 297 HOH HOH . J 6 HOH B 27 298 298 HOH HOH . J 6 HOH B 28 299 299 HOH HOH . J 6 HOH B 29 300 300 HOH HOH . J 6 HOH B 30 301 301 HOH HOH . J 6 HOH B 31 302 302 HOH HOH . J 6 HOH B 32 303 303 HOH HOH . J 6 HOH B 33 304 304 HOH HOH . J 6 HOH B 34 351 351 HOH HOH . K 6 HOH C 1 86 86 HOH HOH . K 6 HOH C 2 87 87 HOH HOH . K 6 HOH C 3 88 88 HOH HOH . K 6 HOH C 4 275 275 HOH HOH . K 6 HOH C 5 276 276 HOH HOH . K 6 HOH C 6 277 277 HOH HOH . K 6 HOH C 7 278 278 HOH HOH . K 6 HOH C 8 279 279 HOH HOH . K 6 HOH C 9 280 280 HOH HOH . K 6 HOH C 10 281 281 HOH HOH . K 6 HOH C 11 282 282 HOH HOH . K 6 HOH C 12 283 283 HOH HOH . K 6 HOH C 13 284 284 HOH HOH . K 6 HOH C 14 285 285 HOH HOH . K 6 HOH C 15 286 286 HOH HOH . K 6 HOH C 16 287 287 HOH HOH . K 6 HOH C 17 288 288 HOH HOH . K 6 HOH C 18 289 289 HOH HOH . K 6 HOH C 19 290 290 HOH HOH . K 6 HOH C 20 291 291 HOH HOH . K 6 HOH C 21 292 292 HOH HOH . K 6 HOH C 22 293 293 HOH HOH . K 6 HOH C 23 294 294 HOH HOH . K 6 HOH C 24 295 295 HOH HOH . K 6 HOH C 25 296 296 HOH HOH . K 6 HOH C 26 297 297 HOH HOH . K 6 HOH C 27 298 298 HOH HOH . K 6 HOH C 28 299 299 HOH HOH . K 6 HOH C 29 300 300 HOH HOH . K 6 HOH C 30 301 301 HOH HOH . K 6 HOH C 31 302 302 HOH HOH . K 6 HOH C 32 303 303 HOH HOH . K 6 HOH C 33 304 304 HOH HOH . L 6 HOH D 1 296 296 HOH HOH . L 6 HOH D 2 297 297 HOH HOH . L 6 HOH D 3 298 298 HOH HOH . L 6 HOH D 4 299 299 HOH HOH . L 6 HOH D 5 300 300 HOH HOH . L 6 HOH D 6 301 301 HOH HOH . L 6 HOH D 7 302 302 HOH HOH . L 6 HOH D 8 303 303 HOH HOH . L 6 HOH D 9 304 304 HOH HOH . L 6 HOH D 10 305 305 HOH HOH . L 6 HOH D 11 306 306 HOH HOH . L 6 HOH D 12 307 307 HOH HOH . L 6 HOH D 13 308 308 HOH HOH . L 6 HOH D 14 309 309 HOH HOH . L 6 HOH D 15 310 310 HOH HOH . L 6 HOH D 16 311 311 HOH HOH . L 6 HOH D 17 312 312 HOH HOH . L 6 HOH D 18 313 313 HOH HOH . L 6 HOH D 19 314 314 HOH HOH . L 6 HOH D 20 315 315 HOH HOH . L 6 HOH D 21 316 316 HOH HOH . L 6 HOH D 22 317 317 HOH HOH . L 6 HOH D 23 318 318 HOH HOH . L 6 HOH D 24 320 320 HOH HOH . L 6 HOH D 25 321 321 HOH HOH . L 6 HOH D 26 322 322 HOH HOH . L 6 HOH D 27 323 323 HOH HOH . L 6 HOH D 28 324 324 HOH HOH . L 6 HOH D 29 325 325 HOH HOH . L 6 HOH D 30 326 326 HOH HOH . L 6 HOH D 31 327 327 HOH HOH . L 6 HOH D 32 328 328 HOH HOH . L 6 HOH D 33 329 329 HOH HOH . L 6 HOH D 34 330 330 HOH HOH . L 6 HOH D 35 331 331 HOH HOH . L 6 HOH D 36 332 332 HOH HOH . L 6 HOH D 37 333 333 HOH HOH . L 6 HOH D 38 334 334 HOH HOH . L 6 HOH D 39 335 335 HOH HOH . L 6 HOH D 40 336 336 HOH HOH . L 6 HOH D 41 337 337 HOH HOH . L 6 HOH D 42 338 338 HOH HOH . L 6 HOH D 43 339 339 HOH HOH . L 6 HOH D 44 340 340 HOH HOH . L 6 HOH D 45 341 341 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 O O4 DST . . . F 4 37.474 38.314 49.298 1 40.47 ? O4 DST 2002 D 1 HETATM 2 P P1 DST . . . F 4 36.904 39.684 49.107 1 39.93 ? P1 DST 2002 D 1 HETATM 3 O O6 DST . . . F 4 37.124 40.232 50.536 1 45.63 ? O6 DST 2002 D 1 HETATM 4 O O5 DST . . . F 4 35.442 39.656 48.947 1 38.85 ? O5 DST 2002 D 1 HETATM 5 O O2 DST . . . F 4 37.456 40.583 48.026 1 43.09 ? O2 DST 2002 D 1 HETATM 6 P P3 DST . . . F 4 38.949 40.712 47.635 1 41.5 ? P3 DST 2002 D 1 HETATM 7 O O8 DST . . . F 4 39.377 42.084 48.129 1 43.61 ? O8 DST 2002 D 1 HETATM 8 O O7 DST . . . F 4 39.605 39.339 48.075 1 40.35 ? O7 DST 2002 D 1 HETATM 9 S S9 DST . . . F 4 39.005 40.746 45.612 1 52.9 ? S9 DST 2002 D 1 HETATM 10 C C10 DST . . . F 4 37.448 40.072 44.983 1 49.57 ? C10 DST 2002 D 1 HETATM 11 C C11 DST . . . F 4 37.586 39.296 43.681 1 52.12 ? C11 DST 2002 D 1 HETATM 12 C C12 DST . . . F 4 37.545 39.839 42.424 1 51.65 ? C12 DST 2002 D 1 HETATM 13 C C13 DST . . . F 4 37.704 38.927 41.234 1 50.79 ? C13 DST 2002 D 1 HETATM 14 C C14 DST . . . F 4 37.35 41.338 42.17 1 52.58 ? C14 DST 2002 D 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #