data_3O2K # _model_server_result.job_id 2BScB39jnqpmt2jDhhGOLQ _model_server_result.datetime_utc '2024-11-22 15:37:33' _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 3o2k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 3O2K # _exptl.entry_id 3O2K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 262.158 _entity.id 2 _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 3O2K _cell.length_a 82.77 _cell.length_b 82.77 _cell.length_c 124.26 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3O2K _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 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 '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 3O2K _atom_sites.fract_transf_matrix[1][1] 0.012082 _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] 0.012082 _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] 0.008048 _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 DST A 1 501 501 DST DST . C 3 QRP A 1 502 502 QRP QRP . D 4 MES A 1 475 1 MES MES . E 5 CL A 1 476 2 CL CL . F 5 CL A 1 477 5 CL CL . G 6 HOH A 1 478 1 HOH HOH . G 6 HOH A 2 479 2 HOH HOH . G 6 HOH A 3 480 3 HOH HOH . G 6 HOH A 4 481 5 HOH HOH . G 6 HOH A 5 482 6 HOH HOH . G 6 HOH A 6 483 7 HOH HOH . G 6 HOH A 7 484 8 HOH HOH . G 6 HOH A 8 485 9 HOH HOH . G 6 HOH A 9 486 10 HOH HOH . G 6 HOH A 10 487 11 HOH HOH . G 6 HOH A 11 488 12 HOH HOH . G 6 HOH A 12 489 14 HOH HOH . G 6 HOH A 13 490 15 HOH HOH . G 6 HOH A 14 491 16 HOH HOH . G 6 HOH A 15 492 17 HOH HOH . G 6 HOH A 16 493 18 HOH HOH . G 6 HOH A 17 494 19 HOH HOH . G 6 HOH A 18 495 21 HOH HOH . G 6 HOH A 19 496 22 HOH HOH . G 6 HOH A 20 497 23 HOH HOH . G 6 HOH A 21 498 25 HOH HOH . G 6 HOH A 22 499 26 HOH HOH . G 6 HOH A 23 500 27 HOH HOH . G 6 HOH A 24 503 28 HOH HOH . G 6 HOH A 25 504 29 HOH HOH . G 6 HOH A 26 505 30 HOH HOH . G 6 HOH A 27 506 31 HOH HOH . G 6 HOH A 28 507 32 HOH HOH . G 6 HOH A 29 508 33 HOH HOH . G 6 HOH A 30 509 34 HOH HOH . G 6 HOH A 31 510 35 HOH HOH . G 6 HOH A 32 511 37 HOH HOH . G 6 HOH A 33 512 38 HOH HOH . G 6 HOH A 34 513 39 HOH HOH . G 6 HOH A 35 514 40 HOH HOH . G 6 HOH A 36 515 41 HOH HOH . G 6 HOH A 37 516 43 HOH HOH . G 6 HOH A 38 517 45 HOH HOH . G 6 HOH A 39 518 50 HOH HOH . G 6 HOH A 40 519 52 HOH HOH . G 6 HOH A 41 520 53 HOH HOH . G 6 HOH A 42 521 54 HOH HOH . G 6 HOH A 43 522 61 HOH HOH . G 6 HOH A 44 523 62 HOH HOH . G 6 HOH A 45 524 63 HOH HOH . G 6 HOH A 46 525 65 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 . . . B 2 -22.681 12.974 -5.249 1 88.59 ? O4 DST 501 A 1 HETATM 2 P P1 DST . . . B 2 -23.494 14.212 -5.241 1 88.06 ? P1 DST 501 A 1 HETATM 3 O O6 DST . . . B 2 -25.077 13.958 -5.401 1 87.92 ? O6 DST 501 A 1 HETATM 4 O O5 DST . . . B 2 -23.107 15.216 -6.439 1 88.95 ? O5 DST 501 A 1 HETATM 5 O O2 DST . . . B 2 -23.331 15.082 -3.882 1 89.56 ? O2 DST 501 A 1 HETATM 6 P P3 DST . . . B 2 -21.889 15.641 -3.376 1 90.56 ? P3 DST 501 A 1 HETATM 7 O O8 DST . . . B 2 -21.536 14.936 -2.123 1 90.68 ? O8 DST 501 A 1 HETATM 8 O O7 DST . . . B 2 -20.937 15.637 -4.512 1 90.55 ? O7 DST 501 A 1 HETATM 9 S S9 DST . . . B 2 -22.358 17.456 -2.96 1 90.89 ? S9 DST 501 A 1 HETATM 10 C C10 DST . . . B 2 -21.521 17.732 -1.354 1 89.81 ? C10 DST 501 A 1 HETATM 11 C C11 DST . . . B 2 -21.86 19.001 -0.901 1 89.56 ? C11 DST 501 A 1 HETATM 12 C C12 DST . . . B 2 -22.298 19.391 0.359 1 89.37 ? C12 DST 501 A 1 HETATM 13 C C13 DST . . . B 2 -22.434 18.396 1.508 1 88.78 ? C13 DST 501 A 1 HETATM 14 C C14 DST . . . B 2 -22.646 20.854 0.597 1 88.98 ? C14 DST 501 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #