data_4DPT # _model_server_result.job_id 8EInf-WGWRpA2RlAUZt-Bg _model_server_result.datetime_utc '2024-11-04 23:01:49' _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 4dpt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 4DPT # _exptl.entry_id 4DPT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 326.107 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(3R)-3-(fluoromethyl)-3-hydroxy-5-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}pentanoic acid' _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 122.34 _cell.angle_gamma 90 _cell.entry_id 4DPT _cell.length_a 102.251 _cell.length_b 82.46 _cell.length_c 93.649 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DPT _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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,F 1 1 B,D,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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C6 H13 F O10 P2' _chem_comp.formula_weight 326.107 _chem_comp.id FM0 _chem_comp.mon_nstd_flag . _chem_comp.name '(3R)-3-(fluoromethyl)-3-hydroxy-5-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}pentanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '6-fluoromevalonate 5-diphosphate' # 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 OAA CAP FM0 doub 132 n n PAR OAB FM0 sing 133 n n OAB HOAB FM0 sing 134 n n PAS OAC FM0 sing 135 n n OAC HOAC FM0 sing 136 n n CAP OAD FM0 sing 137 n n OAD HOAD FM0 sing 138 n n OAE CAQ FM0 sing 139 n n OAE HOAE FM0 sing 140 n n PAR OAF FM0 sing 141 n n OAF HOAF FM0 sing 142 n n OAG PAR FM0 doub 143 n n OAH PAS FM0 doub 144 n n FAI CAJ FM0 sing 145 n n CAJ CAQ FM0 sing 146 n n CAJ HAJ FM0 sing 147 n n CAJ HAJA FM0 sing 148 n n CAK CAL FM0 sing 149 n n CAK OAN FM0 sing 150 n n CAK HAK FM0 sing 151 n n CAK HAKA FM0 sing 152 n n CAQ CAL FM0 sing 153 n n CAL HAL FM0 sing 154 n n CAL HALA FM0 sing 155 n n CAQ CAM FM0 sing 156 n n CAM CAP FM0 sing 157 n n CAM HAM FM0 sing 158 n n CAM HAMA FM0 sing 159 n n PAS OAN FM0 sing 160 n n PAS OAO FM0 sing 161 n n OAO PAR FM0 sing 162 n n # _atom_sites.entry_id 4DPT _atom_sites.fract_transf_matrix[1][1] 0.00978 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006192 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012127 _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] 0.012639 _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 GOL A 1 401 3968 GOL GOL . D 3 FM0 B 1 401 1 FM0 DRG . E 4 AGS B 1 402 1006 AGS AGS . F 5 HOH A 1 501 1 HOH HOH . F 5 HOH A 2 502 3 HOH HOH . F 5 HOH A 3 503 4 HOH HOH . F 5 HOH A 4 504 5 HOH HOH . F 5 HOH A 5 505 6 HOH HOH . F 5 HOH A 6 506 7 HOH HOH . F 5 HOH A 7 507 10 HOH HOH . F 5 HOH A 8 508 12 HOH HOH . F 5 HOH A 9 509 15 HOH HOH . F 5 HOH A 10 510 17 HOH HOH . F 5 HOH A 11 511 18 HOH HOH . F 5 HOH A 12 512 19 HOH HOH . F 5 HOH A 13 513 20 HOH HOH . F 5 HOH A 14 514 23 HOH HOH . F 5 HOH A 15 515 24 HOH HOH . F 5 HOH A 16 516 25 HOH HOH . F 5 HOH A 17 517 26 HOH HOH . F 5 HOH A 18 518 31 HOH HOH . F 5 HOH A 19 519 32 HOH HOH . F 5 HOH A 20 520 33 HOH HOH . F 5 HOH A 21 521 34 HOH HOH . F 5 HOH A 22 522 36 HOH HOH . F 5 HOH A 23 523 37 HOH HOH . F 5 HOH A 24 524 39 HOH HOH . F 5 HOH A 25 525 40 HOH HOH . F 5 HOH A 26 526 41 HOH HOH . F 5 HOH A 27 527 44 HOH HOH . F 5 HOH A 28 528 46 HOH HOH . F 5 HOH A 29 529 49 HOH HOH . F 5 HOH A 30 530 51 HOH HOH . F 5 HOH A 31 531 54 HOH HOH . F 5 HOH A 32 532 57 HOH HOH . F 5 HOH A 33 533 58 HOH HOH . F 5 HOH A 34 534 59 HOH HOH . F 5 HOH A 35 535 60 HOH HOH . F 5 HOH A 36 536 61 HOH HOH . F 5 HOH A 37 537 63 HOH HOH . F 5 HOH A 38 538 64 HOH HOH . F 5 HOH A 39 539 65 HOH HOH . F 5 HOH A 40 540 69 HOH HOH . F 5 HOH A 41 541 72 HOH HOH . F 5 HOH A 42 542 73 HOH HOH . F 5 HOH A 43 543 76 HOH HOH . F 5 HOH A 44 544 77 HOH HOH . F 5 HOH A 45 545 78 HOH HOH . F 5 HOH A 46 546 79 HOH HOH . F 5 HOH A 47 547 82 HOH HOH . F 5 HOH A 48 548 84 HOH HOH . F 5 HOH A 49 549 87 HOH HOH . F 5 HOH A 50 550 89 HOH HOH . F 5 HOH A 51 551 90 HOH HOH . F 5 HOH A 52 552 91 HOH HOH . F 5 HOH A 53 553 92 HOH HOH . F 5 HOH A 54 554 93 HOH HOH . F 5 HOH A 55 555 95 HOH HOH . F 5 HOH A 56 556 97 HOH HOH . F 5 HOH A 57 557 98 HOH HOH . F 5 HOH A 58 558 99 HOH HOH . F 5 HOH A 59 559 100 HOH HOH . F 5 HOH A 60 560 103 HOH HOH . F 5 HOH A 61 561 104 HOH HOH . F 5 HOH A 62 562 105 HOH HOH . F 5 HOH A 63 563 107 HOH HOH . F 5 HOH A 64 564 108 HOH HOH . F 5 HOH A 65 565 111 HOH HOH . F 5 HOH A 66 566 113 HOH HOH . F 5 HOH A 67 567 116 HOH HOH . F 5 HOH A 68 568 118 HOH HOH . F 5 HOH A 69 569 119 HOH HOH . F 5 HOH A 70 570 120 HOH HOH . F 5 HOH A 71 571 121 HOH HOH . F 5 HOH A 72 572 122 HOH HOH . F 5 HOH A 73 573 123 HOH HOH . F 5 HOH A 74 574 125 HOH HOH . F 5 HOH A 75 575 126 HOH HOH . F 5 HOH A 76 576 128 HOH HOH . F 5 HOH A 77 577 129 HOH HOH . F 5 HOH A 78 578 130 HOH HOH . F 5 HOH A 79 579 131 HOH HOH . F 5 HOH A 80 580 133 HOH HOH . F 5 HOH A 81 581 134 HOH HOH . F 5 HOH A 82 582 135 HOH HOH . F 5 HOH A 83 583 136 HOH HOH . F 5 HOH A 84 584 139 HOH HOH . F 5 HOH A 85 585 141 HOH HOH . F 5 HOH A 86 586 144 HOH HOH . F 5 HOH A 87 587 145 HOH HOH . F 5 HOH A 88 588 147 HOH HOH . F 5 HOH A 89 589 148 HOH HOH . F 5 HOH A 90 590 150 HOH HOH . F 5 HOH A 91 591 151 HOH HOH . F 5 HOH A 92 592 152 HOH HOH . F 5 HOH A 93 593 153 HOH HOH . F 5 HOH A 94 594 154 HOH HOH . F 5 HOH A 95 595 155 HOH HOH . F 5 HOH A 96 596 156 HOH HOH . F 5 HOH A 97 597 157 HOH HOH . F 5 HOH A 98 598 158 HOH HOH . F 5 HOH A 99 599 159 HOH HOH . F 5 HOH A 100 600 160 HOH HOH . F 5 HOH A 101 601 161 HOH HOH . F 5 HOH A 102 602 162 HOH HOH . F 5 HOH A 103 603 163 HOH HOH . F 5 HOH A 104 604 164 HOH HOH . F 5 HOH A 105 605 166 HOH HOH . F 5 HOH A 106 606 168 HOH HOH . F 5 HOH A 107 607 169 HOH HOH . F 5 HOH A 108 608 171 HOH HOH . F 5 HOH A 109 609 173 HOH HOH . F 5 HOH A 110 610 175 HOH HOH . F 5 HOH A 111 611 176 HOH HOH . F 5 HOH A 112 612 178 HOH HOH . F 5 HOH A 113 613 179 HOH HOH . F 5 HOH A 114 614 180 HOH HOH . F 5 HOH A 115 615 181 HOH HOH . F 5 HOH A 116 616 183 HOH HOH . F 5 HOH A 117 617 184 HOH HOH . F 5 HOH A 118 618 186 HOH HOH . F 5 HOH A 119 619 187 HOH HOH . F 5 HOH A 120 620 188 HOH HOH . F 5 HOH A 121 621 189 HOH HOH . F 5 HOH A 122 622 190 HOH HOH . F 5 HOH A 123 623 191 HOH HOH . F 5 HOH A 124 624 192 HOH HOH . F 5 HOH A 125 625 193 HOH HOH . F 5 HOH A 126 626 194 HOH HOH . F 5 HOH A 127 627 197 HOH HOH . F 5 HOH A 128 628 201 HOH HOH . F 5 HOH A 129 629 202 HOH HOH . F 5 HOH A 130 630 203 HOH HOH . F 5 HOH A 131 631 204 HOH HOH . F 5 HOH A 132 632 205 HOH HOH . F 5 HOH A 133 633 207 HOH HOH . F 5 HOH A 134 634 208 HOH HOH . F 5 HOH A 135 635 211 HOH HOH . F 5 HOH A 136 636 213 HOH HOH . F 5 HOH A 137 637 214 HOH HOH . F 5 HOH A 138 638 215 HOH HOH . F 5 HOH A 139 639 217 HOH HOH . F 5 HOH A 140 640 218 HOH HOH . F 5 HOH A 141 641 219 HOH HOH . F 5 HOH A 142 642 221 HOH HOH . F 5 HOH A 143 643 223 HOH HOH . F 5 HOH A 144 644 225 HOH HOH . F 5 HOH A 145 645 226 HOH HOH . F 5 HOH A 146 646 228 HOH HOH . F 5 HOH A 147 647 229 HOH HOH . F 5 HOH A 148 648 230 HOH HOH . F 5 HOH A 149 649 232 HOH HOH . F 5 HOH A 150 650 233 HOH HOH . F 5 HOH A 151 651 234 HOH HOH . F 5 HOH A 152 652 240 HOH HOH . F 5 HOH A 153 653 243 HOH HOH . F 5 HOH A 154 654 245 HOH HOH . F 5 HOH A 155 655 246 HOH HOH . F 5 HOH A 156 656 248 HOH HOH . F 5 HOH A 157 657 249 HOH HOH . F 5 HOH A 158 658 250 HOH HOH . G 5 HOH B 1 501 2 HOH HOH . G 5 HOH B 2 502 8 HOH HOH . G 5 HOH B 3 503 9 HOH HOH . G 5 HOH B 4 504 11 HOH HOH . G 5 HOH B 5 505 13 HOH HOH . G 5 HOH B 6 506 14 HOH HOH . G 5 HOH B 7 507 16 HOH HOH . G 5 HOH B 8 508 21 HOH HOH . G 5 HOH B 9 509 22 HOH HOH . G 5 HOH B 10 510 27 HOH HOH . G 5 HOH B 11 511 28 HOH HOH . G 5 HOH B 12 512 29 HOH HOH . G 5 HOH B 13 513 30 HOH HOH . G 5 HOH B 14 514 35 HOH HOH . G 5 HOH B 15 515 38 HOH HOH . G 5 HOH B 16 516 42 HOH HOH . G 5 HOH B 17 517 43 HOH HOH . G 5 HOH B 18 518 45 HOH HOH . G 5 HOH B 19 519 47 HOH HOH . G 5 HOH B 20 520 48 HOH HOH . G 5 HOH B 21 521 50 HOH HOH . G 5 HOH B 22 522 52 HOH HOH . G 5 HOH B 23 523 53 HOH HOH . G 5 HOH B 24 524 55 HOH HOH . G 5 HOH B 25 525 56 HOH HOH . G 5 HOH B 26 526 62 HOH HOH . G 5 HOH B 27 527 66 HOH HOH . G 5 HOH B 28 528 67 HOH HOH . G 5 HOH B 29 529 68 HOH HOH . G 5 HOH B 30 530 70 HOH HOH . G 5 HOH B 31 531 71 HOH HOH . G 5 HOH B 32 532 74 HOH HOH . G 5 HOH B 33 533 75 HOH HOH . G 5 HOH B 34 534 80 HOH HOH . G 5 HOH B 35 535 81 HOH HOH . G 5 HOH B 36 536 83 HOH HOH . G 5 HOH B 37 537 85 HOH HOH . G 5 HOH B 38 538 86 HOH HOH . G 5 HOH B 39 539 88 HOH HOH . G 5 HOH B 40 540 94 HOH HOH . G 5 HOH B 41 541 96 HOH HOH . G 5 HOH B 42 542 101 HOH HOH . G 5 HOH B 43 543 102 HOH HOH . G 5 HOH B 44 544 106 HOH HOH . G 5 HOH B 45 545 109 HOH HOH . G 5 HOH B 46 546 110 HOH HOH . G 5 HOH B 47 547 112 HOH HOH . G 5 HOH B 48 548 114 HOH HOH . G 5 HOH B 49 549 115 HOH HOH . G 5 HOH B 50 550 117 HOH HOH . G 5 HOH B 51 551 124 HOH HOH . G 5 HOH B 52 552 127 HOH HOH . G 5 HOH B 53 553 132 HOH HOH . G 5 HOH B 54 554 137 HOH HOH . G 5 HOH B 55 555 138 HOH HOH . G 5 HOH B 56 556 140 HOH HOH . G 5 HOH B 57 557 142 HOH HOH . G 5 HOH B 58 558 143 HOH HOH . G 5 HOH B 59 559 146 HOH HOH . G 5 HOH B 60 560 149 HOH HOH . G 5 HOH B 61 561 165 HOH HOH . G 5 HOH B 62 562 167 HOH HOH . G 5 HOH B 63 563 170 HOH HOH . G 5 HOH B 64 564 172 HOH HOH . G 5 HOH B 65 565 174 HOH HOH . G 5 HOH B 66 566 177 HOH HOH . G 5 HOH B 67 567 182 HOH HOH . G 5 HOH B 68 568 185 HOH HOH . G 5 HOH B 69 569 195 HOH HOH . G 5 HOH B 70 570 196 HOH HOH . G 5 HOH B 71 571 198 HOH HOH . G 5 HOH B 72 572 199 HOH HOH . G 5 HOH B 73 573 200 HOH HOH . G 5 HOH B 74 574 206 HOH HOH . G 5 HOH B 75 575 209 HOH HOH . G 5 HOH B 76 576 210 HOH HOH . G 5 HOH B 77 577 212 HOH HOH . G 5 HOH B 78 578 216 HOH HOH . G 5 HOH B 79 579 220 HOH HOH . G 5 HOH B 80 580 222 HOH HOH . G 5 HOH B 81 581 224 HOH HOH . G 5 HOH B 82 582 227 HOH HOH . G 5 HOH B 83 583 231 HOH HOH . G 5 HOH B 84 584 235 HOH HOH . G 5 HOH B 85 585 236 HOH HOH . G 5 HOH B 86 586 237 HOH HOH . G 5 HOH B 87 587 238 HOH HOH . G 5 HOH B 88 588 239 HOH HOH . G 5 HOH B 89 589 241 HOH HOH . G 5 HOH B 90 590 242 HOH HOH . G 5 HOH B 91 591 244 HOH HOH . G 5 HOH B 92 592 247 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 OAA FM0 . . . D 3 4.101 18.785 21.517 0.78 40.61 ? OAA FM0 401 B 1 HETATM 2 O OAB FM0 . . . D 3 12.11 18.194 22.206 0.78 24.31 ? OAB FM0 401 B 1 HETATM 3 O OAC FM0 . . . D 3 8.763 17.515 21.106 0.78 35.04 ? OAC FM0 401 B 1 HETATM 4 O OAD FM0 . . . D 3 3.993 19.269 23.647 0.78 37.64 ? OAD FM0 401 B 1 HETATM 5 O OAE FM0 . . . D 3 4.457 20.69 19.733 0.78 36.8 ? OAE FM0 401 B 1 HETATM 6 O OAF FM0 . . . D 3 12.915 19.654 20.42 0.78 38.39 ? OAF FM0 401 B 1 HETATM 7 O OAG FM0 . . . D 3 11.799 17.566 19.836 0.78 36.56 ? OAG FM0 401 B 1 HETATM 8 O OAH FM0 . . . D 3 9.64 18.225 18.937 0.78 47.48 ? OAH FM0 401 B 1 HETATM 9 F FAI FM0 . . . D 3 4.736 23.369 19.316 0.78 49.43 ? FAI FM0 401 B 1 HETATM 10 C CAJ FM0 . . . D 3 4.281 22.818 20.438 0.78 36.58 ? CAJ FM0 401 B 1 HETATM 11 C CAK FM0 . . . D 3 7.13 20.201 21.052 0.78 35.06 ? CAK FM0 401 B 1 HETATM 12 C CAL FM0 . . . D 3 6.358 21.497 20.811 0.78 34.7 ? CAL FM0 401 B 1 HETATM 13 C CAM FM0 . . . D 3 4.294 21.112 22.152 0.78 31.5 ? CAM FM0 401 B 1 HETATM 14 O OAN FM0 . . . D 3 7.935 19.708 20.038 0.78 41.76 ? OAN FM0 401 B 1 HETATM 15 O OAO FM0 . . . D 3 10.425 19.413 20.863 0.78 45.46 ? OAO FM0 401 B 1 HETATM 16 C CAP FM0 . . . D 3 4.119 19.648 22.455 0.78 37.82 ? CAP FM0 401 B 1 HETATM 17 C CAQ FM0 . . . D 3 4.848 21.5 20.787 0.78 38.46 ? CAQ FM0 401 B 1 HETATM 18 P PAR FM0 . . . D 3 11.821 18.709 20.829 0.78 38.79 ? PAR FM0 401 B 1 HETATM 19 P PAS FM0 . . . D 3 9.159 18.713 20.275 0.78 41.81 ? PAS FM0 401 B 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 19 #