data_7ZYK # _model_server_result.job_id vzD3fT6UaIq1zukl8kjV-w _model_server_result.datetime_utc '2024-11-06 22:44:08' _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 7zyk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 7ZYK # _exptl.entry_id 7ZYK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 111.38 _cell.angle_gamma 90 _cell.entry_id 7ZYK _cell.length_a 58.343 _cell.length_b 45.842 _cell.length_c 63.266 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7ZYK _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,G,H _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 7 n n PB O2B ADP sing 8 n n PB O3B ADP sing 9 n n PB O3A ADP sing 10 n n O2B HOB2 ADP sing 11 n n O3B HOB3 ADP sing 12 n n PA O1A ADP doub 13 n n PA O2A ADP sing 14 n n PA O3A ADP sing 15 n n PA O5' ADP sing 16 n n O2A HOA2 ADP sing 17 n n O5' C5' ADP sing 18 n n C5' C4' ADP sing 19 n n C5' "H5'1" ADP sing 20 n n C5' "H5'2" ADP sing 21 n n C4' O4' ADP sing 22 n n C4' C3' ADP sing 23 n n C4' H4' ADP sing 24 n n O4' C1' ADP sing 25 n n C3' O3' ADP sing 26 n n C3' C2' ADP sing 27 n n C3' H3' ADP sing 28 n n O3' HO3' ADP sing 29 n n C2' O2' ADP sing 30 n n C2' C1' ADP sing 31 n n C2' H2' ADP sing 32 n n O2' HO2' ADP sing 33 n n C1' N9 ADP sing 34 n n C1' H1' ADP sing 35 n n N9 C8 ADP sing 36 n y N9 C4 ADP sing 37 n y C8 N7 ADP doub 38 n y C8 H8 ADP sing 39 n n N7 C5 ADP sing 40 n y C5 C6 ADP sing 41 n y C5 C4 ADP doub 42 n y C6 N6 ADP sing 43 n n C6 N1 ADP doub 44 n y N6 HN61 ADP sing 45 n n N6 HN62 ADP sing 46 n n N1 C2 ADP sing 47 n y C2 N3 ADP doub 48 n y C2 H2 ADP sing 49 n n N3 C4 ADP sing 50 n y # _atom_sites.entry_id 7ZYK _atom_sites.fract_transf_matrix[1][1] 0.01714 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00671 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021814 _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] 0.016974 _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 ADP A 1 401 401 ADP ADP . C 3 KEC A 1 402 1 KEC 120 . D 4 ACT A 1 403 1 ACT ACT . E 4 ACT A 1 404 2 ACT ACT . F 4 ACT A 1 405 3 ACT ACT . G 4 ACT A 1 406 4 ACT ACT . H 5 HOH A 1 501 145 HOH HOH . H 5 HOH A 2 502 39 HOH HOH . H 5 HOH A 3 503 215 HOH HOH . H 5 HOH A 4 504 176 HOH HOH . H 5 HOH A 5 505 125 HOH HOH . H 5 HOH A 6 506 221 HOH HOH . H 5 HOH A 7 507 27 HOH HOH . H 5 HOH A 8 508 188 HOH HOH . H 5 HOH A 9 509 169 HOH HOH . H 5 HOH A 10 510 225 HOH HOH . H 5 HOH A 11 511 3 HOH HOH . H 5 HOH A 12 512 173 HOH HOH . H 5 HOH A 13 513 182 HOH HOH . H 5 HOH A 14 514 238 HOH HOH . H 5 HOH A 15 515 2 HOH HOH . H 5 HOH A 16 516 24 HOH HOH . H 5 HOH A 17 517 79 HOH HOH . H 5 HOH A 18 518 106 HOH HOH . H 5 HOH A 19 519 72 HOH HOH . H 5 HOH A 20 520 92 HOH HOH . H 5 HOH A 21 521 63 HOH HOH . H 5 HOH A 22 522 154 HOH HOH . H 5 HOH A 23 523 175 HOH HOH . H 5 HOH A 24 524 41 HOH HOH . H 5 HOH A 25 525 99 HOH HOH . H 5 HOH A 26 526 197 HOH HOH . H 5 HOH A 27 527 115 HOH HOH . H 5 HOH A 28 528 229 HOH HOH . H 5 HOH A 29 529 158 HOH HOH . H 5 HOH A 30 530 184 HOH HOH . H 5 HOH A 31 531 235 HOH HOH . H 5 HOH A 32 532 166 HOH HOH . H 5 HOH A 33 533 230 HOH HOH . H 5 HOH A 34 534 171 HOH HOH . H 5 HOH A 35 535 170 HOH HOH . H 5 HOH A 36 536 28 HOH HOH . H 5 HOH A 37 537 136 HOH HOH . H 5 HOH A 38 538 50 HOH HOH . H 5 HOH A 39 539 45 HOH HOH . H 5 HOH A 40 540 212 HOH HOH . H 5 HOH A 41 541 178 HOH HOH . H 5 HOH A 42 542 224 HOH HOH . H 5 HOH A 43 543 96 HOH HOH . H 5 HOH A 44 544 47 HOH HOH . H 5 HOH A 45 545 210 HOH HOH . H 5 HOH A 46 546 33 HOH HOH . H 5 HOH A 47 547 216 HOH HOH . H 5 HOH A 48 548 177 HOH HOH . H 5 HOH A 49 549 7 HOH HOH . H 5 HOH A 50 550 110 HOH HOH . H 5 HOH A 51 551 127 HOH HOH . H 5 HOH A 52 552 13 HOH HOH . H 5 HOH A 53 553 112 HOH HOH . H 5 HOH A 54 554 78 HOH HOH . H 5 HOH A 55 555 227 HOH HOH . H 5 HOH A 56 556 192 HOH HOH . H 5 HOH A 57 557 8 HOH HOH . H 5 HOH A 58 558 164 HOH HOH . H 5 HOH A 59 559 143 HOH HOH . H 5 HOH A 60 560 80 HOH HOH . H 5 HOH A 61 561 82 HOH HOH . H 5 HOH A 62 562 200 HOH HOH . H 5 HOH A 63 563 228 HOH HOH . H 5 HOH A 64 564 30 HOH HOH . H 5 HOH A 65 565 71 HOH HOH . H 5 HOH A 66 566 64 HOH HOH . H 5 HOH A 67 567 217 HOH HOH . H 5 HOH A 68 568 26 HOH HOH . H 5 HOH A 69 569 4 HOH HOH . H 5 HOH A 70 570 91 HOH HOH . H 5 HOH A 71 571 195 HOH HOH . H 5 HOH A 72 572 241 HOH HOH . H 5 HOH A 73 573 15 HOH HOH . H 5 HOH A 74 574 211 HOH HOH . H 5 HOH A 75 575 113 HOH HOH . H 5 HOH A 76 576 68 HOH HOH . H 5 HOH A 77 577 10 HOH HOH . H 5 HOH A 78 578 1 HOH HOH . H 5 HOH A 79 579 17 HOH HOH . H 5 HOH A 80 580 81 HOH HOH . H 5 HOH A 81 581 14 HOH HOH . H 5 HOH A 82 582 153 HOH HOH . H 5 HOH A 83 583 205 HOH HOH . H 5 HOH A 84 584 181 HOH HOH . H 5 HOH A 85 585 129 HOH HOH . H 5 HOH A 86 586 194 HOH HOH . H 5 HOH A 87 587 174 HOH HOH . H 5 HOH A 88 588 19 HOH HOH . H 5 HOH A 89 589 206 HOH HOH . H 5 HOH A 90 590 85 HOH HOH . H 5 HOH A 91 591 172 HOH HOH . H 5 HOH A 92 592 69 HOH HOH . H 5 HOH A 93 593 105 HOH HOH . H 5 HOH A 94 594 240 HOH HOH . H 5 HOH A 95 595 107 HOH HOH . H 5 HOH A 96 596 116 HOH HOH . H 5 HOH A 97 597 163 HOH HOH . H 5 HOH A 98 598 53 HOH HOH . H 5 HOH A 99 599 20 HOH HOH . H 5 HOH A 100 600 196 HOH HOH . H 5 HOH A 101 601 94 HOH HOH . H 5 HOH A 102 602 117 HOH HOH . H 5 HOH A 103 603 202 HOH HOH . H 5 HOH A 104 604 37 HOH HOH . H 5 HOH A 105 605 118 HOH HOH . H 5 HOH A 106 606 146 HOH HOH . H 5 HOH A 107 607 66 HOH HOH . H 5 HOH A 108 608 9 HOH HOH . H 5 HOH A 109 609 58 HOH HOH . H 5 HOH A 110 610 52 HOH HOH . H 5 HOH A 111 611 214 HOH HOH . H 5 HOH A 112 612 32 HOH HOH . H 5 HOH A 113 613 34 HOH HOH . H 5 HOH A 114 614 133 HOH HOH . H 5 HOH A 115 615 185 HOH HOH . H 5 HOH A 116 616 149 HOH HOH . H 5 HOH A 117 617 183 HOH HOH . H 5 HOH A 118 618 233 HOH HOH . H 5 HOH A 119 619 84 HOH HOH . H 5 HOH A 120 620 31 HOH HOH . H 5 HOH A 121 621 5 HOH HOH . H 5 HOH A 122 622 74 HOH HOH . H 5 HOH A 123 623 73 HOH HOH . H 5 HOH A 124 624 103 HOH HOH . H 5 HOH A 125 625 22 HOH HOH . H 5 HOH A 126 626 36 HOH HOH . H 5 HOH A 127 627 77 HOH HOH . H 5 HOH A 128 628 239 HOH HOH . H 5 HOH A 129 629 6 HOH HOH . H 5 HOH A 130 630 67 HOH HOH . H 5 HOH A 131 631 128 HOH HOH . H 5 HOH A 132 632 167 HOH HOH . H 5 HOH A 133 633 207 HOH HOH . H 5 HOH A 134 634 132 HOH HOH . H 5 HOH A 135 635 48 HOH HOH . H 5 HOH A 136 636 21 HOH HOH . H 5 HOH A 137 637 222 HOH HOH . H 5 HOH A 138 638 11 HOH HOH . H 5 HOH A 139 639 25 HOH HOH . H 5 HOH A 140 640 142 HOH HOH . H 5 HOH A 141 641 150 HOH HOH . H 5 HOH A 142 642 220 HOH HOH . H 5 HOH A 143 643 148 HOH HOH . H 5 HOH A 144 644 147 HOH HOH . H 5 HOH A 145 645 35 HOH HOH . H 5 HOH A 146 646 12 HOH HOH . H 5 HOH A 147 647 190 HOH HOH . H 5 HOH A 148 648 138 HOH HOH . H 5 HOH A 149 649 199 HOH HOH . H 5 HOH A 150 650 100 HOH HOH . H 5 HOH A 151 651 29 HOH HOH . H 5 HOH A 152 652 89 HOH HOH . H 5 HOH A 153 653 223 HOH HOH . H 5 HOH A 154 654 186 HOH HOH . H 5 HOH A 155 655 242 HOH HOH . H 5 HOH A 156 656 232 HOH HOH . H 5 HOH A 157 657 59 HOH HOH . H 5 HOH A 158 658 97 HOH HOH . H 5 HOH A 159 659 46 HOH HOH . H 5 HOH A 160 660 121 HOH HOH . H 5 HOH A 161 661 209 HOH HOH . H 5 HOH A 162 662 60 HOH HOH . H 5 HOH A 163 663 90 HOH HOH . H 5 HOH A 164 664 62 HOH HOH . H 5 HOH A 165 665 139 HOH HOH . H 5 HOH A 166 666 236 HOH HOH . H 5 HOH A 167 667 180 HOH HOH . H 5 HOH A 168 668 109 HOH HOH . H 5 HOH A 169 669 131 HOH HOH . H 5 HOH A 170 670 189 HOH HOH . H 5 HOH A 171 671 243 HOH HOH . H 5 HOH A 172 672 179 HOH HOH . H 5 HOH A 173 673 104 HOH HOH . H 5 HOH A 174 674 75 HOH HOH . H 5 HOH A 175 675 157 HOH HOH . H 5 HOH A 176 676 144 HOH HOH . H 5 HOH A 177 677 231 HOH HOH . H 5 HOH A 178 678 152 HOH HOH . H 5 HOH A 179 679 43 HOH HOH . H 5 HOH A 180 680 168 HOH HOH . H 5 HOH A 181 681 119 HOH HOH . H 5 HOH A 182 682 213 HOH HOH . H 5 HOH A 183 683 156 HOH HOH . H 5 HOH A 184 684 155 HOH HOH . H 5 HOH A 185 685 203 HOH HOH . H 5 HOH A 186 686 18 HOH HOH . H 5 HOH A 187 687 204 HOH HOH . H 5 HOH A 188 688 201 HOH HOH . H 5 HOH A 189 689 208 HOH HOH . H 5 HOH A 190 690 161 HOH HOH . H 5 HOH A 191 691 198 HOH HOH . H 5 HOH A 192 692 162 HOH HOH . H 5 HOH A 193 693 102 HOH HOH . H 5 HOH A 194 694 234 HOH HOH . H 5 HOH A 195 695 140 HOH HOH . H 5 HOH A 196 696 226 HOH HOH . H 5 HOH A 197 697 165 HOH HOH . H 5 HOH A 198 698 56 HOH HOH . H 5 HOH A 199 699 101 HOH HOH . H 5 HOH A 200 700 130 HOH HOH . H 5 HOH A 201 701 219 HOH HOH . H 5 HOH A 202 702 126 HOH HOH . H 5 HOH A 203 703 16 HOH HOH . H 5 HOH A 204 704 159 HOH HOH . H 5 HOH A 205 705 98 HOH HOH . H 5 HOH A 206 706 83 HOH HOH . H 5 HOH A 207 707 151 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 PB ADP . . . B 2 -116.602 -180.933 305.846 1 20 ? PB ADP 401 A 1 HETATM 2 O O1B ADP . . . B 2 -117.572 -180.213 304.946 1 20 ? O1B ADP 401 A 1 HETATM 3 O O2B ADP . . . B 2 -115.786 -181.962 305.115 1 20 ? O2B ADP 401 A 1 HETATM 4 O O3B ADP . . . B 2 -115.787 -179.975 306.683 1 20 ? O3B ADP 401 A 1 HETATM 5 P PA ADP . . . B 2 -119.078 -181.961 306.82 1 20 ? PA ADP 401 A 1 HETATM 6 O O1A ADP . . . B 2 -119.507 -182.228 305.415 1 20 ? O1A ADP 401 A 1 HETATM 7 O O2A ADP . . . B 2 -119.431 -182.959 307.873 1 20 ? O2A ADP 401 A 1 HETATM 8 O O3A ADP . . . B 2 -117.497 -181.777 306.849 1 20 ? O3A ADP 401 A 1 HETATM 9 O O5' ADP . . . B 2 -119.543 -180.481 307.25 1 20 ? O5' ADP 401 A 1 HETATM 10 C C5' ADP . . . B 2 -120.33 -179.756 306.272 1 20 ? C5' ADP 401 A 1 HETATM 11 C C4' ADP . . . B 2 -120.43 -178.277 306.578 1 20 ? C4' ADP 401 A 1 HETATM 12 O O4' ADP . . . B 2 -121.174 -178.076 307.804 1 20 ? O4' ADP 401 A 1 HETATM 13 C C3' ADP . . . B 2 -119.122 -177.495 306.75 1 20 ? C3' ADP 401 A 1 HETATM 14 O O3' ADP . . . B 2 -119.243 -176.214 306.141 1 20 ? O3' ADP 401 A 1 HETATM 15 C C2' ADP . . . B 2 -118.944 -177.399 308.267 1 20 ? C2' ADP 401 A 1 HETATM 16 O O2' ADP . . . B 2 -118.359 -176.171 308.643 1 20 ? O2' ADP 401 A 1 HETATM 17 C C1' ADP . . . B 2 -120.369 -177.497 308.802 1 20 ? C1' ADP 401 A 1 HETATM 18 N N9 ADP . . . B 2 -120.512 -178.324 309.991 1 20 ? N9 ADP 401 A 1 HETATM 19 C C8 ADP . . . B 2 -120.546 -179.694 310.02 1 20 ? C8 ADP 401 A 1 HETATM 20 N N7 ADP . . . B 2 -120.71 -180.182 311.222 1 20 ? N7 ADP 401 A 1 HETATM 21 C C5 ADP . . . B 2 -120.8 -179.067 312.038 1 20 ? C5 ADP 401 A 1 HETATM 22 C C6 ADP . . . B 2 -120.983 -178.924 313.426 1 20 ? C6 ADP 401 A 1 HETATM 23 N N6 ADP . . . B 2 -121.138 -179.945 314.261 1 20 ? N6 ADP 401 A 1 HETATM 24 N N1 ADP . . . B 2 -121.037 -177.665 313.924 1 20 ? N1 ADP 401 A 1 HETATM 25 C C2 ADP . . . B 2 -120.909 -176.64 313.076 1 20 ? C2 ADP 401 A 1 HETATM 26 N N3 ADP . . . B 2 -120.727 -176.657 311.759 1 20 ? N3 ADP 401 A 1 HETATM 27 C C4 ADP . . . B 2 -120.684 -177.913 311.29 1 20 ? C4 ADP 401 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #