data_5CVF # _model_server_result.job_id GFc9RC2rm8FoZos9xYeBtg _model_server_result.datetime_utc '2024-11-05 21:25:06' _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 5cvf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 5CVF # _exptl.entry_id 5CVF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 111.86 _cell.angle_gamma 90 _cell.entry_id 5CVF _cell.length_a 58.68 _cell.length_b 45.9 _cell.length_c 62.9 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CVF _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 PG O1G ATP doub 97 n n PG O2G ATP sing 98 n n PG O3G ATP sing 99 n n PG O3B ATP sing 100 n n O2G HOG2 ATP sing 101 n n O3G HOG3 ATP sing 102 n n PB O1B ATP doub 103 n n PB O2B ATP sing 104 n n PB O3B ATP sing 105 n n PB O3A ATP sing 106 n n O2B HOB2 ATP sing 107 n n PA O1A ATP doub 108 n n PA O2A ATP sing 109 n n PA O3A ATP sing 110 n n PA O5' ATP sing 111 n n O2A HOA2 ATP sing 112 n n O5' C5' ATP sing 113 n n C5' C4' ATP sing 114 n n C5' "H5'1" ATP sing 115 n n C5' "H5'2" ATP sing 116 n n C4' O4' ATP sing 117 n n C4' C3' ATP sing 118 n n C4' H4' ATP sing 119 n n O4' C1' ATP sing 120 n n C3' O3' ATP sing 121 n n C3' C2' ATP sing 122 n n C3' H3' ATP sing 123 n n O3' HO3' ATP sing 124 n n C2' O2' ATP sing 125 n n C2' C1' ATP sing 126 n n C2' H2' ATP sing 127 n n O2' HO2' ATP sing 128 n n C1' N9 ATP sing 129 n n C1' H1' ATP sing 130 n n N9 C8 ATP sing 131 n y N9 C4 ATP sing 132 n y C8 N7 ATP doub 133 n y C8 H8 ATP sing 134 n n N7 C5 ATP sing 135 n y C5 C6 ATP sing 136 n y C5 C4 ATP doub 137 n y C6 N6 ATP sing 138 n n C6 N1 ATP doub 139 n y N6 HN61 ATP sing 140 n n N6 HN62 ATP sing 141 n n N1 C2 ATP sing 142 n y C2 N3 ATP doub 143 n y C2 H2 ATP sing 144 n n N3 C4 ATP sing 145 n y # _atom_sites.entry_id 5CVF _atom_sites.fract_transf_matrix[1][1] 0.017042 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006837 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021786 _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] 0.01713 _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 54Z A 1 401 1 54Z 54D . C 3 ATP A 1 402 1 ATP ATP . D 4 ACT A 1 403 1 ACT ACT . E 4 ACT A 1 404 2 ACT ACT . F 5 HOH A 1 501 158 HOH HOH . F 5 HOH A 2 502 201 HOH HOH . F 5 HOH A 3 503 74 HOH HOH . F 5 HOH A 4 504 218 HOH HOH . F 5 HOH A 5 505 31 HOH HOH . F 5 HOH A 6 506 195 HOH HOH . F 5 HOH A 7 507 219 HOH HOH . F 5 HOH A 8 508 42 HOH HOH . F 5 HOH A 9 509 1 HOH HOH . F 5 HOH A 10 510 196 HOH HOH . F 5 HOH A 11 511 100 HOH HOH . F 5 HOH A 12 512 176 HOH HOH . F 5 HOH A 13 513 202 HOH HOH . F 5 HOH A 14 514 48 HOH HOH . F 5 HOH A 15 515 105 HOH HOH . F 5 HOH A 16 516 206 HOH HOH . F 5 HOH A 17 517 185 HOH HOH . F 5 HOH A 18 518 197 HOH HOH . F 5 HOH A 19 519 211 HOH HOH . F 5 HOH A 20 520 71 HOH HOH . F 5 HOH A 21 521 220 HOH HOH . F 5 HOH A 22 522 102 HOH HOH . F 5 HOH A 23 523 99 HOH HOH . F 5 HOH A 24 524 207 HOH HOH . F 5 HOH A 25 525 98 HOH HOH . F 5 HOH A 26 526 57 HOH HOH . F 5 HOH A 27 527 108 HOH HOH . F 5 HOH A 28 528 24 HOH HOH . F 5 HOH A 29 529 154 HOH HOH . F 5 HOH A 30 530 66 HOH HOH . F 5 HOH A 31 531 134 HOH HOH . F 5 HOH A 32 532 139 HOH HOH . F 5 HOH A 33 533 153 HOH HOH . F 5 HOH A 34 534 84 HOH HOH . F 5 HOH A 35 535 212 HOH HOH . F 5 HOH A 36 536 101 HOH HOH . F 5 HOH A 37 537 63 HOH HOH . F 5 HOH A 38 538 40 HOH HOH . F 5 HOH A 39 539 62 HOH HOH . F 5 HOH A 40 540 164 HOH HOH . F 5 HOH A 41 541 114 HOH HOH . F 5 HOH A 42 542 177 HOH HOH . F 5 HOH A 43 543 38 HOH HOH . F 5 HOH A 44 544 17 HOH HOH . F 5 HOH A 45 545 58 HOH HOH . F 5 HOH A 46 546 53 HOH HOH . F 5 HOH A 47 547 70 HOH HOH . F 5 HOH A 48 548 199 HOH HOH . F 5 HOH A 49 549 151 HOH HOH . F 5 HOH A 50 550 120 HOH HOH . F 5 HOH A 51 551 64 HOH HOH . F 5 HOH A 52 552 34 HOH HOH . F 5 HOH A 53 553 156 HOH HOH . F 5 HOH A 54 554 51 HOH HOH . F 5 HOH A 55 555 104 HOH HOH . F 5 HOH A 56 556 194 HOH HOH . F 5 HOH A 57 557 45 HOH HOH . F 5 HOH A 58 558 15 HOH HOH . F 5 HOH A 59 559 5 HOH HOH . F 5 HOH A 60 560 14 HOH HOH . F 5 HOH A 61 561 183 HOH HOH . F 5 HOH A 62 562 23 HOH HOH . F 5 HOH A 63 563 95 HOH HOH . F 5 HOH A 64 564 165 HOH HOH . F 5 HOH A 65 565 85 HOH HOH . F 5 HOH A 66 566 36 HOH HOH . F 5 HOH A 67 567 203 HOH HOH . F 5 HOH A 68 568 89 HOH HOH . F 5 HOH A 69 569 160 HOH HOH . F 5 HOH A 70 570 25 HOH HOH . F 5 HOH A 71 571 13 HOH HOH . F 5 HOH A 72 572 91 HOH HOH . F 5 HOH A 73 573 149 HOH HOH . F 5 HOH A 74 574 221 HOH HOH . F 5 HOH A 75 575 2 HOH HOH . F 5 HOH A 76 576 68 HOH HOH . F 5 HOH A 77 577 189 HOH HOH . F 5 HOH A 78 578 162 HOH HOH . F 5 HOH A 79 579 198 HOH HOH . F 5 HOH A 80 580 138 HOH HOH . F 5 HOH A 81 581 3 HOH HOH . F 5 HOH A 82 582 16 HOH HOH . F 5 HOH A 83 583 97 HOH HOH . F 5 HOH A 84 584 152 HOH HOH . F 5 HOH A 85 585 186 HOH HOH . F 5 HOH A 86 586 30 HOH HOH . F 5 HOH A 87 587 113 HOH HOH . F 5 HOH A 88 588 115 HOH HOH . F 5 HOH A 89 589 7 HOH HOH . F 5 HOH A 90 590 41 HOH HOH . F 5 HOH A 91 591 27 HOH HOH . F 5 HOH A 92 592 46 HOH HOH . F 5 HOH A 93 593 122 HOH HOH . F 5 HOH A 94 594 200 HOH HOH . F 5 HOH A 95 595 96 HOH HOH . F 5 HOH A 96 596 49 HOH HOH . F 5 HOH A 97 597 129 HOH HOH . F 5 HOH A 98 598 107 HOH HOH . F 5 HOH A 99 599 39 HOH HOH . F 5 HOH A 100 600 167 HOH HOH . F 5 HOH A 101 601 6 HOH HOH . F 5 HOH A 102 602 128 HOH HOH . F 5 HOH A 103 603 217 HOH HOH . F 5 HOH A 104 604 140 HOH HOH . F 5 HOH A 105 605 187 HOH HOH . F 5 HOH A 106 606 67 HOH HOH . F 5 HOH A 107 607 208 HOH HOH . F 5 HOH A 108 608 28 HOH HOH . F 5 HOH A 109 609 111 HOH HOH . F 5 HOH A 110 610 181 HOH HOH . F 5 HOH A 111 611 172 HOH HOH . F 5 HOH A 112 612 110 HOH HOH . F 5 HOH A 113 613 88 HOH HOH . F 5 HOH A 114 614 147 HOH HOH . F 5 HOH A 115 615 59 HOH HOH . F 5 HOH A 116 616 29 HOH HOH . F 5 HOH A 117 617 135 HOH HOH . F 5 HOH A 118 618 117 HOH HOH . F 5 HOH A 119 619 43 HOH HOH . F 5 HOH A 120 620 8 HOH HOH . F 5 HOH A 121 621 118 HOH HOH . F 5 HOH A 122 622 50 HOH HOH . F 5 HOH A 123 623 10 HOH HOH . F 5 HOH A 124 624 83 HOH HOH . F 5 HOH A 125 625 79 HOH HOH . F 5 HOH A 126 626 157 HOH HOH . F 5 HOH A 127 627 126 HOH HOH . F 5 HOH A 128 628 137 HOH HOH . F 5 HOH A 129 629 76 HOH HOH . F 5 HOH A 130 630 44 HOH HOH . F 5 HOH A 131 631 18 HOH HOH . F 5 HOH A 132 632 19 HOH HOH . F 5 HOH A 133 633 148 HOH HOH . F 5 HOH A 134 634 131 HOH HOH . F 5 HOH A 135 635 4 HOH HOH . F 5 HOH A 136 636 190 HOH HOH . F 5 HOH A 137 637 204 HOH HOH . F 5 HOH A 138 638 144 HOH HOH . F 5 HOH A 139 639 32 HOH HOH . F 5 HOH A 140 640 11 HOH HOH . F 5 HOH A 141 641 82 HOH HOH . F 5 HOH A 142 642 109 HOH HOH . F 5 HOH A 143 643 93 HOH HOH . F 5 HOH A 144 644 12 HOH HOH . F 5 HOH A 145 645 145 HOH HOH . F 5 HOH A 146 646 33 HOH HOH . F 5 HOH A 147 647 209 HOH HOH . F 5 HOH A 148 648 22 HOH HOH . F 5 HOH A 149 649 26 HOH HOH . F 5 HOH A 150 650 54 HOH HOH . F 5 HOH A 151 651 94 HOH HOH . F 5 HOH A 152 652 188 HOH HOH . F 5 HOH A 153 653 65 HOH HOH . F 5 HOH A 154 654 106 HOH HOH . F 5 HOH A 155 655 214 HOH HOH . F 5 HOH A 156 656 21 HOH HOH . F 5 HOH A 157 657 142 HOH HOH . F 5 HOH A 158 658 78 HOH HOH . F 5 HOH A 159 659 86 HOH HOH . F 5 HOH A 160 660 119 HOH HOH . F 5 HOH A 161 661 163 HOH HOH . F 5 HOH A 162 662 61 HOH HOH . F 5 HOH A 163 663 121 HOH HOH . F 5 HOH A 164 664 90 HOH HOH . F 5 HOH A 165 665 56 HOH HOH . F 5 HOH A 166 666 73 HOH HOH . F 5 HOH A 167 667 116 HOH HOH . F 5 HOH A 168 668 210 HOH HOH . F 5 HOH A 169 669 75 HOH HOH . F 5 HOH A 170 670 35 HOH HOH . F 5 HOH A 171 671 216 HOH HOH . F 5 HOH A 172 672 130 HOH HOH . F 5 HOH A 173 673 9 HOH HOH . F 5 HOH A 174 674 133 HOH HOH . F 5 HOH A 175 675 191 HOH HOH . F 5 HOH A 176 676 92 HOH HOH . F 5 HOH A 177 677 87 HOH HOH . F 5 HOH A 178 678 174 HOH HOH . F 5 HOH A 179 679 47 HOH HOH . F 5 HOH A 180 680 159 HOH HOH . F 5 HOH A 181 681 132 HOH HOH . F 5 HOH A 182 682 179 HOH HOH . F 5 HOH A 183 683 81 HOH HOH . F 5 HOH A 184 684 184 HOH HOH . F 5 HOH A 185 685 141 HOH HOH . F 5 HOH A 186 686 150 HOH HOH . F 5 HOH A 187 687 112 HOH HOH . F 5 HOH A 188 688 193 HOH HOH . F 5 HOH A 189 689 60 HOH HOH . F 5 HOH A 190 690 72 HOH HOH . F 5 HOH A 191 691 213 HOH HOH . F 5 HOH A 192 692 180 HOH HOH . F 5 HOH A 193 693 52 HOH HOH . F 5 HOH A 194 694 143 HOH HOH . F 5 HOH A 195 695 20 HOH HOH . F 5 HOH A 196 696 155 HOH HOH . F 5 HOH A 197 697 124 HOH HOH . F 5 HOH A 198 698 168 HOH HOH . F 5 HOH A 199 699 161 HOH HOH . F 5 HOH A 200 700 182 HOH HOH . F 5 HOH A 201 701 169 HOH HOH . F 5 HOH A 202 702 125 HOH HOH . F 5 HOH A 203 703 215 HOH HOH . F 5 HOH A 204 704 171 HOH HOH . F 5 HOH A 205 705 170 HOH HOH . F 5 HOH A 206 706 55 HOH HOH . F 5 HOH A 207 707 123 HOH HOH . F 5 HOH A 208 708 146 HOH HOH . F 5 HOH A 209 709 136 HOH HOH . F 5 HOH A 210 710 127 HOH HOH . F 5 HOH A 211 711 103 HOH HOH . F 5 HOH A 212 712 173 HOH HOH . F 5 HOH A 213 713 175 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 P PG ATP . . . C 3 91.283 14.166 138.203 0.65 22.94 ? PG ATP 402 A 1 HETATM 2 O O1G ATP . . . C 3 90.075 14.28 137.311 0.65 23.89 ? O1G ATP 402 A 1 HETATM 3 O O2G ATP . . . C 3 91.873 15.498 138.529 0.65 27.79 ? O2G ATP 402 A 1 HETATM 4 O O3G ATP . . . C 3 90.88 13.369 139.441 0.65 22.28 ? O3G ATP 402 A 1 HETATM 5 P PB ATP . . . C 3 92.452 11.922 136.672 0.65 20.69 ? PB ATP 402 A 1 HETATM 6 O O1B ATP . . . C 3 91.057 11.314 136.691 0.65 18.26 ? O1B ATP 402 A 1 HETATM 7 O O2B ATP . . . C 3 93.406 11.032 137.373 0.65 20.12 ? O2B ATP 402 A 1 HETATM 8 O O3B ATP . . . C 3 92.39 13.332 137.414 0.65 21.9 ? O3B ATP 402 A 1 HETATM 9 P PA ATP . . . C 3 92.329 12.818 133.883 0.65 16.73 ? PA ATP 402 A 1 HETATM 10 O O1A ATP . . . C 3 92.66 11.957 132.655 0.65 15.77 ? O1A ATP 402 A 1 HETATM 11 O O2A ATP . . . C 3 90.867 12.89 134.025 0.65 14.41 ? O2A ATP 402 A 1 HETATM 12 O O3A ATP . . . C 3 92.948 12.121 135.172 0.65 18.31 ? O3A ATP 402 A 1 HETATM 13 O O5' ATP . . . C 3 92.917 14.322 133.683 0.65 18.29 ? O5' ATP 402 A 1 HETATM 14 C C5' ATP . . . C 3 92.56 15.423 134.552 0.65 20.49 ? C5' ATP 402 A 1 HETATM 15 C C4' ATP . . . C 3 93.012 16.764 134.013 0.65 22.2 ? C4' ATP 402 A 1 HETATM 16 O O4' ATP . . . C 3 93.799 16.6 132.813 0.65 19.8 ? O4' ATP 402 A 1 HETATM 17 C C3' ATP . . . C 3 91.923 17.791 133.694 0.65 25.88 ? C3' ATP 402 A 1 HETATM 18 O O3' ATP . . . C 3 92.289 19.07 134.196 0.65 28.05 ? O3' ATP 402 A 1 HETATM 19 C C2' ATP . . . C 3 91.866 17.798 132.163 0.65 23.63 ? C2' ATP 402 A 1 HETATM 20 O O2' ATP . . . C 3 91.585 19.106 131.671 0.65 26.12 ? O2' ATP 402 A 1 HETATM 21 C C1' ATP . . . C 3 93.295 17.417 131.775 0.65 17.57 ? C1' ATP 402 A 1 HETATM 22 N N9 ATP . . . C 3 93.378 16.673 130.523 0.65 13.41 ? N9 ATP 402 A 1 HETATM 23 C C8 ATP . . . C 3 93.325 15.314 130.373 0.65 11.85 ? C8 ATP 402 A 1 HETATM 24 N N7 ATP . . . C 3 93.47 14.907 129.135 0.65 10.6 ? N7 ATP 402 A 1 HETATM 25 C C5 ATP . . . C 3 93.633 16.082 128.42 0.65 9.97 ? C5 ATP 402 A 1 HETATM 26 C C6 ATP . . . C 3 93.838 16.338 127.049 0.65 11.58 ? C6 ATP 402 A 1 HETATM 27 N N6 ATP . . . C 3 93.984 15.379 126.131 0.65 8.05 ? N6 ATP 402 A 1 HETATM 28 N N1 ATP . . . C 3 93.941 17.631 126.659 0.65 14.52 ? N1 ATP 402 A 1 HETATM 29 C C2 ATP . . . C 3 93.864 18.591 127.591 0.65 13.92 ? C2 ATP 402 A 1 HETATM 30 N N3 ATP . . . C 3 93.669 18.469 128.906 0.65 12.73 ? N3 ATP 402 A 1 HETATM 31 C C4 ATP . . . C 3 93.567 17.181 129.261 0.65 11.16 ? C4 ATP 402 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 363 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #