data_7X5B # _model_server_result.job_id 3Odnni94KlbtJT48hvn0fg _model_server_result.datetime_utc '2024-10-10 02:25:49' _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 7x5b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 7X5B # _exptl.entry_id 7X5B _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 90 _cell.angle_gamma 120 _cell.entry_id 7X5B _cell.length_a 85.677 _cell.length_b 85.677 _cell.length_c 76.973 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7X5B _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall 'P 65' _symmetry.space_group_name_H-M 'P 65' # _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 _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 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 7X5B _atom_sites.fract_transf_matrix[1][1] 0.011672 _atom_sites.fract_transf_matrix[1][2] 0.006739 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013477 _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] 0.012992 _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 1 ADP ADP . C 3 HOH A 1 501 187 HOH HOH . C 3 HOH A 2 502 53 HOH HOH . C 3 HOH A 3 503 95 HOH HOH . C 3 HOH A 4 504 153 HOH HOH . C 3 HOH A 5 505 137 HOH HOH . C 3 HOH A 6 506 119 HOH HOH . C 3 HOH A 7 507 42 HOH HOH . C 3 HOH A 8 508 146 HOH HOH . C 3 HOH A 9 509 9 HOH HOH . C 3 HOH A 10 510 103 HOH HOH . C 3 HOH A 11 511 180 HOH HOH . C 3 HOH A 12 512 117 HOH HOH . C 3 HOH A 13 513 111 HOH HOH . C 3 HOH A 14 514 176 HOH HOH . C 3 HOH A 15 515 134 HOH HOH . C 3 HOH A 16 516 71 HOH HOH . C 3 HOH A 17 517 81 HOH HOH . C 3 HOH A 18 518 178 HOH HOH . C 3 HOH A 19 519 30 HOH HOH . C 3 HOH A 20 520 102 HOH HOH . C 3 HOH A 21 521 106 HOH HOH . C 3 HOH A 22 522 96 HOH HOH . C 3 HOH A 23 523 77 HOH HOH . C 3 HOH A 24 524 45 HOH HOH . C 3 HOH A 25 525 66 HOH HOH . C 3 HOH A 26 526 44 HOH HOH . C 3 HOH A 27 527 22 HOH HOH . C 3 HOH A 28 528 65 HOH HOH . C 3 HOH A 29 529 108 HOH HOH . C 3 HOH A 30 530 183 HOH HOH . C 3 HOH A 31 531 50 HOH HOH . C 3 HOH A 32 532 7 HOH HOH . C 3 HOH A 33 533 158 HOH HOH . C 3 HOH A 34 534 80 HOH HOH . C 3 HOH A 35 535 122 HOH HOH . C 3 HOH A 36 536 113 HOH HOH . C 3 HOH A 37 537 133 HOH HOH . C 3 HOH A 38 538 101 HOH HOH . C 3 HOH A 39 539 165 HOH HOH . C 3 HOH A 40 540 82 HOH HOH . C 3 HOH A 41 541 70 HOH HOH . C 3 HOH A 42 542 23 HOH HOH . C 3 HOH A 43 543 1 HOH HOH . C 3 HOH A 44 544 149 HOH HOH . C 3 HOH A 45 545 33 HOH HOH . C 3 HOH A 46 546 78 HOH HOH . C 3 HOH A 47 547 60 HOH HOH . C 3 HOH A 48 548 62 HOH HOH . C 3 HOH A 49 549 147 HOH HOH . C 3 HOH A 50 550 63 HOH HOH . C 3 HOH A 51 551 3 HOH HOH . C 3 HOH A 52 552 13 HOH HOH . C 3 HOH A 53 553 79 HOH HOH . C 3 HOH A 54 554 19 HOH HOH . C 3 HOH A 55 555 138 HOH HOH . C 3 HOH A 56 556 8 HOH HOH . C 3 HOH A 57 557 164 HOH HOH . C 3 HOH A 58 558 5 HOH HOH . C 3 HOH A 59 559 169 HOH HOH . C 3 HOH A 60 560 72 HOH HOH . C 3 HOH A 61 561 12 HOH HOH . C 3 HOH A 62 562 67 HOH HOH . C 3 HOH A 63 563 189 HOH HOH . C 3 HOH A 64 564 34 HOH HOH . C 3 HOH A 65 565 121 HOH HOH . C 3 HOH A 66 566 2 HOH HOH . C 3 HOH A 67 567 17 HOH HOH . C 3 HOH A 68 568 127 HOH HOH . C 3 HOH A 69 569 40 HOH HOH . C 3 HOH A 70 570 97 HOH HOH . C 3 HOH A 71 571 143 HOH HOH . C 3 HOH A 72 572 148 HOH HOH . C 3 HOH A 73 573 35 HOH HOH . C 3 HOH A 74 574 31 HOH HOH . C 3 HOH A 75 575 99 HOH HOH . C 3 HOH A 76 576 181 HOH HOH . C 3 HOH A 77 577 90 HOH HOH . C 3 HOH A 78 578 47 HOH HOH . C 3 HOH A 79 579 14 HOH HOH . C 3 HOH A 80 580 48 HOH HOH . C 3 HOH A 81 581 26 HOH HOH . C 3 HOH A 82 582 41 HOH HOH . C 3 HOH A 83 583 36 HOH HOH . C 3 HOH A 84 584 125 HOH HOH . C 3 HOH A 85 585 100 HOH HOH . C 3 HOH A 86 586 4 HOH HOH . C 3 HOH A 87 587 27 HOH HOH . C 3 HOH A 88 588 20 HOH HOH . C 3 HOH A 89 589 15 HOH HOH . C 3 HOH A 90 590 28 HOH HOH . C 3 HOH A 91 591 16 HOH HOH . C 3 HOH A 92 592 10 HOH HOH . C 3 HOH A 93 593 18 HOH HOH . C 3 HOH A 94 594 195 HOH HOH . C 3 HOH A 95 595 24 HOH HOH . C 3 HOH A 96 596 85 HOH HOH . C 3 HOH A 97 597 43 HOH HOH . C 3 HOH A 98 598 114 HOH HOH . C 3 HOH A 99 599 6 HOH HOH . C 3 HOH A 100 600 56 HOH HOH . C 3 HOH A 101 601 124 HOH HOH . C 3 HOH A 102 602 25 HOH HOH . C 3 HOH A 103 603 129 HOH HOH . C 3 HOH A 104 604 39 HOH HOH . C 3 HOH A 105 605 182 HOH HOH . C 3 HOH A 106 606 142 HOH HOH . C 3 HOH A 107 607 52 HOH HOH . C 3 HOH A 108 608 32 HOH HOH . C 3 HOH A 109 609 140 HOH HOH . C 3 HOH A 110 610 61 HOH HOH . C 3 HOH A 111 611 93 HOH HOH . C 3 HOH A 112 612 98 HOH HOH . C 3 HOH A 113 613 57 HOH HOH . C 3 HOH A 114 614 131 HOH HOH . C 3 HOH A 115 615 58 HOH HOH . C 3 HOH A 116 616 29 HOH HOH . C 3 HOH A 117 617 126 HOH HOH . C 3 HOH A 118 618 73 HOH HOH . C 3 HOH A 119 619 107 HOH HOH . C 3 HOH A 120 620 38 HOH HOH . C 3 HOH A 121 621 94 HOH HOH . C 3 HOH A 122 622 54 HOH HOH . C 3 HOH A 123 623 84 HOH HOH . C 3 HOH A 124 624 11 HOH HOH . C 3 HOH A 125 625 87 HOH HOH . C 3 HOH A 126 626 136 HOH HOH . C 3 HOH A 127 627 145 HOH HOH . C 3 HOH A 128 628 64 HOH HOH . C 3 HOH A 129 629 46 HOH HOH . C 3 HOH A 130 630 172 HOH HOH . C 3 HOH A 131 631 91 HOH HOH . C 3 HOH A 132 632 76 HOH HOH . C 3 HOH A 133 633 37 HOH HOH . C 3 HOH A 134 634 190 HOH HOH . C 3 HOH A 135 635 167 HOH HOH . C 3 HOH A 136 636 105 HOH HOH . C 3 HOH A 137 637 116 HOH HOH . C 3 HOH A 138 638 21 HOH HOH . C 3 HOH A 139 639 170 HOH HOH . C 3 HOH A 140 640 59 HOH HOH . C 3 HOH A 141 641 115 HOH HOH . C 3 HOH A 142 642 128 HOH HOH . C 3 HOH A 143 643 196 HOH HOH . C 3 HOH A 144 644 49 HOH HOH . C 3 HOH A 145 645 75 HOH HOH . C 3 HOH A 146 646 104 HOH HOH . C 3 HOH A 147 647 51 HOH HOH . C 3 HOH A 148 648 141 HOH HOH . C 3 HOH A 149 649 161 HOH HOH . C 3 HOH A 150 650 163 HOH HOH . C 3 HOH A 151 651 185 HOH HOH . C 3 HOH A 152 652 166 HOH HOH . C 3 HOH A 153 653 159 HOH HOH . C 3 HOH A 154 654 83 HOH HOH . C 3 HOH A 155 655 175 HOH HOH . C 3 HOH A 156 656 151 HOH HOH . C 3 HOH A 157 657 92 HOH HOH . C 3 HOH A 158 658 152 HOH HOH . C 3 HOH A 159 659 150 HOH HOH . C 3 HOH A 160 660 162 HOH HOH . C 3 HOH A 161 661 89 HOH HOH . C 3 HOH A 162 662 135 HOH HOH . C 3 HOH A 163 663 74 HOH HOH . C 3 HOH A 164 664 173 HOH HOH . C 3 HOH A 165 665 110 HOH HOH . C 3 HOH A 166 666 55 HOH HOH . C 3 HOH A 167 667 123 HOH HOH . C 3 HOH A 168 668 186 HOH HOH . C 3 HOH A 169 669 144 HOH HOH . C 3 HOH A 170 670 120 HOH HOH . C 3 HOH A 171 671 179 HOH HOH . C 3 HOH A 172 672 154 HOH HOH . C 3 HOH A 173 673 118 HOH HOH . C 3 HOH A 174 674 192 HOH HOH . C 3 HOH A 175 675 177 HOH HOH . C 3 HOH A 176 676 132 HOH HOH . C 3 HOH A 177 677 168 HOH HOH . C 3 HOH A 178 678 112 HOH HOH . C 3 HOH A 179 679 109 HOH HOH . C 3 HOH A 180 680 171 HOH HOH . C 3 HOH A 181 681 194 HOH HOH . C 3 HOH A 182 682 188 HOH HOH . C 3 HOH A 183 683 139 HOH HOH . C 3 HOH A 184 684 193 HOH HOH . C 3 HOH A 185 685 174 HOH HOH . C 3 HOH A 186 686 130 HOH HOH . C 3 HOH A 187 687 86 HOH HOH . C 3 HOH A 188 688 68 HOH HOH . C 3 HOH A 189 689 184 HOH HOH . C 3 HOH A 190 690 69 HOH HOH . C 3 HOH A 191 691 155 HOH HOH . C 3 HOH A 192 692 88 HOH HOH . C 3 HOH A 193 693 160 HOH HOH . C 3 HOH A 194 694 156 HOH HOH . C 3 HOH A 195 695 191 HOH HOH . C 3 HOH A 196 696 157 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 24.577 -12.987 -3.143 1 24.42 ? PB ADP 401 A 1 HETATM 2 O O1B ADP . . . B 2 23.771 -13.629 -4.258 1 22.15 ? O1B ADP 401 A 1 HETATM 3 O O2B ADP . . . B 2 24.468 -13.704 -1.815 1 21.28 ? O2B ADP 401 A 1 HETATM 4 O O3B ADP . . . B 2 24.431 -11.483 -3.043 1 27.82 ? O3B ADP 401 A 1 HETATM 5 P PA ADP . . . B 2 26.697 -13.671 -4.98 1 29.77 ? PA ADP 401 A 1 HETATM 6 O O1A ADP . . . B 2 26.183 -12.636 -5.962 1 32.18 ? O1A ADP 401 A 1 HETATM 7 O O2A ADP . . . B 2 26.411 -15.124 -5.283 1 23.3 ? O2A ADP 401 A 1 HETATM 8 O O3A ADP . . . B 2 26.14 -13.258 -3.502 1 21.88 ? O3A ADP 401 A 1 HETATM 9 O O5' ADP . . . B 2 28.302 -13.532 -4.762 1 27.54 ? O5' ADP 401 A 1 HETATM 10 C C5' ADP . . . B 2 28.996 -12.395 -5.278 1 31.54 ? C5' ADP 401 A 1 HETATM 11 C C4' ADP . . . B 2 30.505 -12.6 -5.471 1 29.16 ? C4' ADP 401 A 1 HETATM 12 O O4' ADP . . . B 2 31.075 -13.304 -4.355 1 24.77 ? O4' ADP 401 A 1 HETATM 13 C C3' ADP . . . B 2 30.892 -13.329 -6.759 1 31.92 ? C3' ADP 401 A 1 HETATM 14 O O3' ADP . . . B 2 31.935 -12.619 -7.484 1 31.46 ? O3' ADP 401 A 1 HETATM 15 C C2' ADP . . . B 2 31.535 -14.606 -6.282 1 28.97 ? C2' ADP 401 A 1 HETATM 16 O O2' ADP . . . B 2 32.74 -14.689 -7.04 1 32.93 ? O2' ADP 401 A 1 HETATM 17 C C1' ADP . . . B 2 31.917 -14.361 -4.83 1 25.82 ? C1' ADP 401 A 1 HETATM 18 N N9 ADP . . . B 2 31.776 -15.494 -3.867 1 26.83 ? N9 ADP 401 A 1 HETATM 19 C C8 ADP . . . B 2 30.642 -15.805 -3.213 1 21.65 ? C8 ADP 401 A 1 HETATM 20 N N7 ADP . . . B 2 30.835 -16.852 -2.362 1 27.56 ? N7 ADP 401 A 1 HETATM 21 C C5 ADP . . . B 2 32.129 -17.229 -2.458 1 23.99 ? C5 ADP 401 A 1 HETATM 22 C C6 ADP . . . B 2 32.992 -18.259 -1.83 1 24.75 ? C6 ADP 401 A 1 HETATM 23 N N6 ADP . . . B 2 32.505 -19.127 -0.916 1 22.84 ? N6 ADP 401 A 1 HETATM 24 N N1 ADP . . . B 2 34.285 -18.318 -2.212 1 24.8 ? N1 ADP 401 A 1 HETATM 25 C C2 ADP . . . B 2 34.778 -17.453 -3.129 1 26.36 ? C2 ADP 401 A 1 HETATM 26 N N3 ADP . . . B 2 34.063 -16.492 -3.739 1 21.85 ? N3 ADP 401 A 1 HETATM 27 C C4 ADP . . . B 2 32.751 -16.324 -3.445 1 26.53 ? C4 ADP 401 A 1 # _model_server_stats.io_time_ms 31 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 257 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #