data_6T7N # _model_server_result.job_id YLZj_Wj-pYcf4rUlIOHA4w _model_server_result.datetime_utc '2024-11-14 10:55:16' _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 6t7n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 6T7N # _exptl.entry_id 6T7N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 246.092 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE' _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 90 _cell.angle_gamma 120 _cell.entry_id 6T7N _cell.length_a 58.45 _cell.length_b 58.45 _cell.length_c 391.793 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6T7N _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall 'P 61 2 (x,y,z+5/12)' _symmetry.space_group_name_H-M 'P 61 2 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' 12_565 x,x-y+1,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -29.225 50.619185 65.298833 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 F 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 metalc ? metalc1 A OD2 ASP 98 AAAA ASP 98 1_555 B MN MN . AAAA MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc2 A OD1 ASP 98 AAAA ASP 98 1_555 D MN MN . AAAA MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc3 A OD2 ASP 102 AAAA ASP 102 1_555 B MN MN . AAAA MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc4 A OD2 ASP 102 AAAA ASP 102 1_555 D MN MN . AAAA MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc5 A OD2 ASP 250 AAAA ASP 250 1_555 C MN MN . AAAA MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc6 B MN MN . AAAA MN 401 1_555 E O1B IPE . AAAA IPE 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc7 B MN MN . AAAA MN 401 1_555 E O2A IPE . AAAA IPE 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc8 B MN MN . AAAA MN 401 1_555 G O HOH . AAAA HOH 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? metalc ? metalc9 B MN MN . AAAA MN 401 1_555 G O HOH . AAAA HOH 589 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc10 C MN MN . AAAA MN 402 1_555 E O2B IPE . AAAA IPE 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? metalc ? metalc11 C MN MN . AAAA MN 402 1_555 G O HOH . AAAA HOH 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc12 C MN MN . AAAA MN 402 1_555 G O HOH . AAAA HOH 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc13 C MN MN . AAAA MN 402 1_555 G O HOH . AAAA HOH 623 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc14 D MN MN . AAAA MN 403 1_555 E O2A IPE . AAAA IPE 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc15 D MN MN . AAAA MN 403 1_555 G O HOH . AAAA HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.9 ? metalc ? metalc16 D MN MN . AAAA MN 403 1_555 G O HOH . AAAA HOH 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc17 D MN MN . AAAA MN 403 1_555 G O HOH . AAAA HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? # _chem_comp.formula 'C5 H12 O7 P2' _chem_comp.formula_weight 246.092 _chem_comp.id IPE _chem_comp.mon_nstd_flag . _chem_comp.name '3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ISOPENTENYL 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 C1 O1 IPE sing 173 n n C1 C2 IPE sing 174 n n C1 H11 IPE sing 175 n n C1 H12 IPE sing 176 n n O1 PA IPE sing 177 n n C2 C3 IPE sing 178 n n C2 H21 IPE sing 179 n n C2 H22 IPE sing 180 n n C3 C4 IPE doub 181 n n C3 C5 IPE sing 182 n n C4 H41 IPE sing 183 n n C4 H42 IPE sing 184 n n C5 H51 IPE sing 185 n n C5 H52 IPE sing 186 n n C5 H53 IPE sing 187 n n PA O1A IPE doub 188 n n PA O2A IPE sing 189 n n PA O3A IPE sing 190 n n O2A H2A IPE sing 191 n n O3A PB IPE sing 192 n n PB O1B IPE sing 193 n n PB O2B IPE doub 194 n n PB O3B IPE sing 195 n n O1B H1B IPE sing 196 n n O3B H3B IPE sing 197 n n # _atom_sites.entry_id 6T7N _atom_sites.fract_transf_matrix[1][1] 0.017109 _atom_sites.fract_transf_matrix[1][2] 0.009878 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019755 _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] 0.002552 _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 MN AAAA 1 401 1 MN MN . C 2 MN AAAA 1 402 2 MN MN . D 2 MN AAAA 1 403 3 MN MN . E 3 IPE AAAA 1 404 1 IPE IPP . F 3 IPE AAAA 1 405 2 IPE IPP . G 4 HOH AAAA 1 501 223 HOH HOH . G 4 HOH AAAA 2 502 56 HOH HOH . G 4 HOH AAAA 3 503 213 HOH HOH . G 4 HOH AAAA 4 504 95 HOH HOH . G 4 HOH AAAA 5 505 174 HOH HOH . G 4 HOH AAAA 6 506 125 HOH HOH . G 4 HOH AAAA 7 507 97 HOH HOH . G 4 HOH AAAA 8 508 214 HOH HOH . G 4 HOH AAAA 9 509 185 HOH HOH . G 4 HOH AAAA 10 510 216 HOH HOH . G 4 HOH AAAA 11 511 74 HOH HOH . G 4 HOH AAAA 12 512 145 HOH HOH . G 4 HOH AAAA 13 513 58 HOH HOH . G 4 HOH AAAA 14 514 14 HOH HOH . G 4 HOH AAAA 15 515 131 HOH HOH . G 4 HOH AAAA 16 516 143 HOH HOH . G 4 HOH AAAA 17 517 51 HOH HOH . G 4 HOH AAAA 18 518 207 HOH HOH . G 4 HOH AAAA 19 519 75 HOH HOH . G 4 HOH AAAA 20 520 154 HOH HOH . G 4 HOH AAAA 21 521 18 HOH HOH . G 4 HOH AAAA 22 522 103 HOH HOH . G 4 HOH AAAA 23 523 137 HOH HOH . G 4 HOH AAAA 24 524 17 HOH HOH . G 4 HOH AAAA 25 525 113 HOH HOH . G 4 HOH AAAA 26 526 26 HOH HOH . G 4 HOH AAAA 27 527 200 HOH HOH . G 4 HOH AAAA 28 528 4 HOH HOH . G 4 HOH AAAA 29 529 7 HOH HOH . G 4 HOH AAAA 30 530 59 HOH HOH . G 4 HOH AAAA 31 531 25 HOH HOH . G 4 HOH AAAA 32 532 34 HOH HOH . G 4 HOH AAAA 33 533 1 HOH HOH . G 4 HOH AAAA 34 534 46 HOH HOH . G 4 HOH AAAA 35 535 39 HOH HOH . G 4 HOH AAAA 36 536 67 HOH HOH . G 4 HOH AAAA 37 537 29 HOH HOH . G 4 HOH AAAA 38 538 21 HOH HOH . G 4 HOH AAAA 39 539 86 HOH HOH . G 4 HOH AAAA 40 540 90 HOH HOH . G 4 HOH AAAA 41 541 135 HOH HOH . G 4 HOH AAAA 42 542 217 HOH HOH . G 4 HOH AAAA 43 543 8 HOH HOH . G 4 HOH AAAA 44 544 41 HOH HOH . G 4 HOH AAAA 45 545 146 HOH HOH . G 4 HOH AAAA 46 546 124 HOH HOH . G 4 HOH AAAA 47 547 142 HOH HOH . G 4 HOH AAAA 48 548 60 HOH HOH . G 4 HOH AAAA 49 549 130 HOH HOH . G 4 HOH AAAA 50 550 38 HOH HOH . G 4 HOH AAAA 51 551 177 HOH HOH . G 4 HOH AAAA 52 552 78 HOH HOH . G 4 HOH AAAA 53 553 169 HOH HOH . G 4 HOH AAAA 54 554 55 HOH HOH . G 4 HOH AAAA 55 555 199 HOH HOH . G 4 HOH AAAA 56 556 173 HOH HOH . G 4 HOH AAAA 57 557 40 HOH HOH . G 4 HOH AAAA 58 558 42 HOH HOH . G 4 HOH AAAA 59 559 116 HOH HOH . G 4 HOH AAAA 60 560 87 HOH HOH . G 4 HOH AAAA 61 561 220 HOH HOH . G 4 HOH AAAA 62 562 122 HOH HOH . G 4 HOH AAAA 63 563 165 HOH HOH . G 4 HOH AAAA 64 564 12 HOH HOH . G 4 HOH AAAA 65 565 15 HOH HOH . G 4 HOH AAAA 66 566 43 HOH HOH . G 4 HOH AAAA 67 567 5 HOH HOH . G 4 HOH AAAA 68 568 167 HOH HOH . G 4 HOH AAAA 69 569 61 HOH HOH . G 4 HOH AAAA 70 570 3 HOH HOH . G 4 HOH AAAA 71 571 50 HOH HOH . G 4 HOH AAAA 72 572 81 HOH HOH . G 4 HOH AAAA 73 573 2 HOH HOH . G 4 HOH AAAA 74 574 179 HOH HOH . G 4 HOH AAAA 75 575 93 HOH HOH . G 4 HOH AAAA 76 576 114 HOH HOH . G 4 HOH AAAA 77 577 132 HOH HOH . G 4 HOH AAAA 78 578 24 HOH HOH . G 4 HOH AAAA 79 579 215 HOH HOH . G 4 HOH AAAA 80 580 33 HOH HOH . G 4 HOH AAAA 81 581 44 HOH HOH . G 4 HOH AAAA 82 582 94 HOH HOH . G 4 HOH AAAA 83 583 57 HOH HOH . G 4 HOH AAAA 84 584 123 HOH HOH . G 4 HOH AAAA 85 585 150 HOH HOH . G 4 HOH AAAA 86 586 23 HOH HOH . G 4 HOH AAAA 87 587 153 HOH HOH . G 4 HOH AAAA 88 588 16 HOH HOH . G 4 HOH AAAA 89 589 6 HOH HOH . G 4 HOH AAAA 90 590 138 HOH HOH . G 4 HOH AAAA 91 591 166 HOH HOH . G 4 HOH AAAA 92 592 68 HOH HOH . G 4 HOH AAAA 93 593 127 HOH HOH . G 4 HOH AAAA 94 594 64 HOH HOH . G 4 HOH AAAA 95 595 141 HOH HOH . G 4 HOH AAAA 96 596 10 HOH HOH . G 4 HOH AAAA 97 597 108 HOH HOH . G 4 HOH AAAA 98 598 109 HOH HOH . G 4 HOH AAAA 99 599 37 HOH HOH . G 4 HOH AAAA 100 600 13 HOH HOH . G 4 HOH AAAA 101 601 144 HOH HOH . G 4 HOH AAAA 102 602 99 HOH HOH . G 4 HOH AAAA 103 603 31 HOH HOH . G 4 HOH AAAA 104 604 73 HOH HOH . G 4 HOH AAAA 105 605 102 HOH HOH . G 4 HOH AAAA 106 606 65 HOH HOH . G 4 HOH AAAA 107 607 47 HOH HOH . G 4 HOH AAAA 108 608 181 HOH HOH . G 4 HOH AAAA 109 609 52 HOH HOH . G 4 HOH AAAA 110 610 180 HOH HOH . G 4 HOH AAAA 111 611 45 HOH HOH . G 4 HOH AAAA 112 612 22 HOH HOH . G 4 HOH AAAA 113 613 19 HOH HOH . G 4 HOH AAAA 114 614 71 HOH HOH . G 4 HOH AAAA 115 615 30 HOH HOH . G 4 HOH AAAA 116 616 91 HOH HOH . G 4 HOH AAAA 117 617 112 HOH HOH . G 4 HOH AAAA 118 618 84 HOH HOH . G 4 HOH AAAA 119 619 105 HOH HOH . G 4 HOH AAAA 120 620 170 HOH HOH . G 4 HOH AAAA 121 621 115 HOH HOH . G 4 HOH AAAA 122 622 121 HOH HOH . G 4 HOH AAAA 123 623 49 HOH HOH . G 4 HOH AAAA 124 624 221 HOH HOH . G 4 HOH AAAA 125 625 62 HOH HOH . G 4 HOH AAAA 126 626 53 HOH HOH . G 4 HOH AAAA 127 627 66 HOH HOH . G 4 HOH AAAA 128 628 92 HOH HOH . G 4 HOH AAAA 129 629 27 HOH HOH . G 4 HOH AAAA 130 630 20 HOH HOH . G 4 HOH AAAA 131 631 35 HOH HOH . G 4 HOH AAAA 132 632 9 HOH HOH . G 4 HOH AAAA 133 633 85 HOH HOH . G 4 HOH AAAA 134 634 126 HOH HOH . G 4 HOH AAAA 135 635 149 HOH HOH . G 4 HOH AAAA 136 636 104 HOH HOH . G 4 HOH AAAA 137 637 206 HOH HOH . G 4 HOH AAAA 138 638 155 HOH HOH . G 4 HOH AAAA 139 639 76 HOH HOH . G 4 HOH AAAA 140 640 152 HOH HOH . G 4 HOH AAAA 141 641 82 HOH HOH . G 4 HOH AAAA 142 642 69 HOH HOH . G 4 HOH AAAA 143 643 147 HOH HOH . G 4 HOH AAAA 144 644 211 HOH HOH . G 4 HOH AAAA 145 645 118 HOH HOH . G 4 HOH AAAA 146 646 219 HOH HOH . G 4 HOH AAAA 147 647 209 HOH HOH . G 4 HOH AAAA 148 648 133 HOH HOH . G 4 HOH AAAA 149 649 72 HOH HOH . G 4 HOH AAAA 150 650 88 HOH HOH . G 4 HOH AAAA 151 651 168 HOH HOH . G 4 HOH AAAA 152 652 148 HOH HOH . G 4 HOH AAAA 153 653 89 HOH HOH . G 4 HOH AAAA 154 654 182 HOH HOH . G 4 HOH AAAA 155 655 98 HOH HOH . G 4 HOH AAAA 156 656 208 HOH HOH . G 4 HOH AAAA 157 657 110 HOH HOH . G 4 HOH AAAA 158 658 96 HOH HOH . G 4 HOH AAAA 159 659 117 HOH HOH . G 4 HOH AAAA 160 660 163 HOH HOH . G 4 HOH AAAA 161 661 101 HOH HOH . G 4 HOH AAAA 162 662 183 HOH HOH . G 4 HOH AAAA 163 663 193 HOH HOH . G 4 HOH AAAA 164 664 210 HOH HOH . G 4 HOH AAAA 165 665 192 HOH HOH . G 4 HOH AAAA 166 666 178 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 C C1 IPE . . . E 3 -10.993 18.765 19.032 1 31.83 ? C1 IPE 404 AAAA 1 HETATM 2 O O1 IPE . . . E 3 -12.442 18.653 19.037 1 32.46 ? O1 IPE 404 AAAA 1 HETATM 3 C C2 IPE . . . E 3 -10.617 20.12 19.599 1 31.15 ? C2 IPE 404 AAAA 1 HETATM 4 C C3 IPE . . . E 3 -10.686 20.269 21.108 1 31.83 ? C3 IPE 404 AAAA 1 HETATM 5 C C4 IPE . . . E 3 -11.038 19.274 21.92 1 32.86 ? C4 IPE 404 AAAA 1 HETATM 6 C C5 IPE . . . E 3 -10.329 21.607 21.633 1 31.68 ? C5 IPE 404 AAAA 1 HETATM 7 P PA IPE . . . E 3 -13.274 17.3 18.999 1 31.02 ? PA IPE 404 AAAA 1 HETATM 8 O O1A IPE . . . E 3 -13.513 16.99 17.561 1 35.2 ? O1A IPE 404 AAAA 1 HETATM 9 O O2A IPE . . . E 3 -14.521 17.578 19.895 1 27.12 ? O2A IPE 404 AAAA 1 HETATM 10 O O3A IPE . . . E 3 -12.393 16.206 19.724 1 28.86 ? O3A IPE 404 AAAA 1 HETATM 11 P PB IPE . . . E 3 -12.754 14.676 19.987 1 28.25 ? PB IPE 404 AAAA 1 HETATM 12 O O1B IPE . . . E 3 -13.86 14.765 20.955 1 25.89 ? O1B IPE 404 AAAA 1 HETATM 13 O O2B IPE . . . E 3 -13.153 14.14 18.619 1 27.38 ? O2B IPE 404 AAAA 1 HETATM 14 O O3B IPE . . . E 3 -11.475 14.04 20.451 1 29.15 ? O3B IPE 404 AAAA 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #