data_3BK7 # _model_server_result.job_id QETLchjSr9mt9YDUNj90bw _model_server_result.datetime_utc '2025-03-04 07:57:41' _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 3bk7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":598}' # _entry.id 3BK7 # _exptl.entry_id 3BK7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-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 90 _cell.entry_id 3BK7 _cell.length_a 63.2 _cell.length_b 63.2 _cell.length_c 319.38 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3BK7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 F N N ? 4 G 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 disulf ? disulf1 A SG CYS 97 A CYS 83 1_555 A SG CYS 146 A CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc1 A SG CYS 29 A CYS 15 1_555 E FE4 SF4 . A SF4 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc2 A SG CYS 34 A CYS 20 1_555 E FE2 SF4 . A SF4 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc3 A SG CYS 39 A CYS 25 1_555 E FE1 SF4 . A SF4 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc4 A SG CYS 43 A CYS 29 1_555 D FE1 SF4 . A SF4 596 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? metalc ? metalc5 A SG CYS 69 A CYS 55 1_555 D FE2 SF4 . A SF4 596 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc6 A SG CYS 72 A CYS 58 1_555 D FE4 SF4 . A SF4 596 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.487 ? metalc ? metalc7 A SG CYS 75 A CYS 61 1_555 D FE3 SF4 . A SF4 596 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc8 A SG CYS 79 A CYS 65 1_555 E FE3 SF4 . A SF4 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? # _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 3BK7 _atom_sites.fract_transf_matrix[1][1] 0.015823 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015823 _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] 0.003131 _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 MG A 1 594 2 MG MG . C 2 MG A 1 595 4 MG MG . D 3 SF4 A 1 596 1 SF4 SF4 . E 3 SF4 A 1 597 2 SF4 SF4 . F 4 ADP A 1 598 1 ADP ADP . G 4 ADP A 1 599 3 ADP ADP . H 5 HOH A 1 600 1 HOH WAT . H 5 HOH A 2 601 2 HOH WAT . H 5 HOH A 3 602 3 HOH WAT . H 5 HOH A 4 603 4 HOH WAT . H 5 HOH A 5 604 5 HOH WAT . H 5 HOH A 6 605 7 HOH WAT . H 5 HOH A 7 606 8 HOH WAT . H 5 HOH A 8 607 9 HOH WAT . H 5 HOH A 9 608 10 HOH WAT . H 5 HOH A 10 609 11 HOH WAT . H 5 HOH A 11 610 12 HOH WAT . H 5 HOH A 12 611 13 HOH WAT . H 5 HOH A 13 612 14 HOH WAT . H 5 HOH A 14 613 15 HOH WAT . H 5 HOH A 15 614 16 HOH WAT . H 5 HOH A 16 615 17 HOH WAT . H 5 HOH A 17 616 19 HOH WAT . H 5 HOH A 18 617 20 HOH WAT . H 5 HOH A 19 618 22 HOH WAT . H 5 HOH A 20 619 23 HOH WAT . H 5 HOH A 21 620 24 HOH WAT . H 5 HOH A 22 621 25 HOH WAT . H 5 HOH A 23 622 26 HOH WAT . H 5 HOH A 24 623 27 HOH WAT . H 5 HOH A 25 624 29 HOH WAT . H 5 HOH A 26 625 30 HOH WAT . H 5 HOH A 27 626 31 HOH WAT . H 5 HOH A 28 627 32 HOH WAT . H 5 HOH A 29 628 33 HOH WAT . H 5 HOH A 30 629 34 HOH WAT . H 5 HOH A 31 630 36 HOH WAT . H 5 HOH A 32 631 37 HOH WAT . H 5 HOH A 33 632 38 HOH WAT . H 5 HOH A 34 633 39 HOH WAT . H 5 HOH A 35 634 41 HOH WAT . H 5 HOH A 36 635 42 HOH WAT . H 5 HOH A 37 636 43 HOH WAT . H 5 HOH A 38 637 44 HOH WAT . H 5 HOH A 39 638 45 HOH WAT . H 5 HOH A 40 639 46 HOH WAT . H 5 HOH A 41 640 47 HOH WAT . H 5 HOH A 42 641 48 HOH WAT . H 5 HOH A 43 642 49 HOH WAT . H 5 HOH A 44 643 51 HOH WAT . H 5 HOH A 45 644 52 HOH WAT . H 5 HOH A 46 645 53 HOH WAT . H 5 HOH A 47 646 54 HOH WAT . H 5 HOH A 48 647 55 HOH WAT . H 5 HOH A 49 648 57 HOH WAT . H 5 HOH A 50 649 58 HOH WAT . H 5 HOH A 51 650 59 HOH WAT . H 5 HOH A 52 651 60 HOH WAT . H 5 HOH A 53 652 62 HOH WAT . H 5 HOH A 54 653 63 HOH WAT . H 5 HOH A 55 654 64 HOH WAT . H 5 HOH A 56 655 65 HOH WAT . H 5 HOH A 57 656 67 HOH WAT . H 5 HOH A 58 657 68 HOH WAT . H 5 HOH A 59 658 69 HOH WAT . H 5 HOH A 60 659 72 HOH WAT . H 5 HOH A 61 660 73 HOH WAT . H 5 HOH A 62 661 74 HOH WAT . H 5 HOH A 63 662 75 HOH WAT . H 5 HOH A 64 663 76 HOH WAT . H 5 HOH A 65 664 77 HOH WAT . H 5 HOH A 66 665 78 HOH WAT . H 5 HOH A 67 666 79 HOH WAT . H 5 HOH A 68 667 80 HOH WAT . H 5 HOH A 69 668 81 HOH WAT . H 5 HOH A 70 669 82 HOH WAT . H 5 HOH A 71 670 83 HOH WAT . H 5 HOH A 72 671 84 HOH WAT . H 5 HOH A 73 672 85 HOH WAT . H 5 HOH A 74 673 86 HOH WAT . H 5 HOH A 75 674 87 HOH WAT . H 5 HOH A 76 675 88 HOH WAT . H 5 HOH A 77 676 89 HOH WAT . H 5 HOH A 78 677 90 HOH WAT . H 5 HOH A 79 678 92 HOH WAT . H 5 HOH A 80 679 93 HOH WAT . H 5 HOH A 81 680 94 HOH WAT . H 5 HOH A 82 681 95 HOH WAT . H 5 HOH A 83 682 96 HOH WAT . H 5 HOH A 84 683 97 HOH WAT . H 5 HOH A 85 684 98 HOH WAT . H 5 HOH A 86 685 100 HOH WAT . H 5 HOH A 87 686 101 HOH WAT . H 5 HOH A 88 687 102 HOH WAT . H 5 HOH A 89 688 103 HOH WAT . H 5 HOH A 90 689 105 HOH WAT . H 5 HOH A 91 690 106 HOH WAT . H 5 HOH A 92 691 107 HOH WAT . H 5 HOH A 93 692 108 HOH WAT . H 5 HOH A 94 693 109 HOH WAT . H 5 HOH A 95 694 110 HOH WAT . H 5 HOH A 96 695 111 HOH WAT . H 5 HOH A 97 696 112 HOH WAT . H 5 HOH A 98 697 115 HOH WAT . H 5 HOH A 99 698 117 HOH WAT . H 5 HOH A 100 699 119 HOH WAT . H 5 HOH A 101 700 121 HOH WAT . H 5 HOH A 102 701 122 HOH WAT . H 5 HOH A 103 702 123 HOH WAT . H 5 HOH A 104 703 125 HOH WAT . H 5 HOH A 105 704 126 HOH WAT . H 5 HOH A 106 705 127 HOH WAT . H 5 HOH A 107 706 128 HOH WAT . H 5 HOH A 108 707 129 HOH WAT . H 5 HOH A 109 708 130 HOH WAT . H 5 HOH A 110 709 131 HOH WAT . H 5 HOH A 111 710 132 HOH WAT . H 5 HOH A 112 711 133 HOH WAT . H 5 HOH A 113 712 134 HOH WAT . H 5 HOH A 114 713 135 HOH WAT . # 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 . . . F 4 -30.815 -11.76 -41.452 1 16.04 ? PB ADP 598 A 1 HETATM 2 O O1B ADP . . . F 4 -29.953 -10.542 -41.639 1 13.7 ? O1B ADP 598 A 1 HETATM 3 O O2B ADP . . . F 4 -32.271 -11.564 -41.446 1 15.9 ? O2B ADP 598 A 1 HETATM 4 O O3B ADP . . . F 4 -30.355 -12.513 -40.063 1 16.78 ? O3B ADP 598 A 1 HETATM 5 P PA ADP . . . F 4 -29.356 -12.799 -43.8 1 20.76 ? PA ADP 598 A 1 HETATM 6 O O1A ADP . . . F 4 -30.024 -11.97 -44.816 1 20.91 ? O1A ADP 598 A 1 HETATM 7 O O2A ADP . . . F 4 -27.941 -12.456 -43.446 1 19.91 ? O2A ADP 598 A 1 HETATM 8 O O3A ADP . . . F 4 -30.312 -12.811 -42.509 1 18 ? O3A ADP 598 A 1 HETATM 9 O O5' ADP . . . F 4 -29.406 -14.308 -44.259 1 20.55 ? O5' ADP 598 A 1 HETATM 10 C C5' ADP . . . F 4 -30.561 -15.174 -44.192 1 21.72 ? C5' ADP 598 A 1 HETATM 11 C C4' ADP . . . F 4 -30.165 -16.618 -44.49 1 22.18 ? C4' ADP 598 A 1 HETATM 12 O O4' ADP . . . F 4 -29.359 -16.626 -45.694 1 21.27 ? O4' ADP 598 A 1 HETATM 13 C C3' ADP . . . F 4 -29.327 -17.301 -43.41 1 21.59 ? C3' ADP 598 A 1 HETATM 14 O O3' ADP . . . F 4 -29.95 -18.565 -43.161 1 21.85 ? O3' ADP 598 A 1 HETATM 15 C C2' ADP . . . F 4 -27.976 -17.415 -44.043 1 21.97 ? C2' ADP 598 A 1 HETATM 16 O O2' ADP . . . F 4 -27.254 -18.57 -43.604 1 22.48 ? O2' ADP 598 A 1 HETATM 17 C C1' ADP . . . F 4 -28.253 -17.508 -45.542 1 20.96 ? C1' ADP 598 A 1 HETATM 18 N N9 ADP . . . F 4 -27.146 -17.01 -46.406 1 20 ? N9 ADP 598 A 1 HETATM 19 C C8 ADP . . . F 4 -26.527 -15.771 -46.424 1 19.17 ? C8 ADP 598 A 1 HETATM 20 N N7 ADP . . . F 4 -25.586 -15.641 -47.318 1 17.49 ? N7 ADP 598 A 1 HETATM 21 C C5 ADP . . . F 4 -25.584 -16.882 -47.928 1 17.17 ? C5 ADP 598 A 1 HETATM 22 C C6 ADP . . . F 4 -24.822 -17.425 -48.995 1 16.52 ? C6 ADP 598 A 1 HETATM 23 N N6 ADP . . . F 4 -23.888 -16.706 -49.59 1 15.13 ? N6 ADP 598 A 1 HETATM 24 N N1 ADP . . . F 4 -25.056 -18.708 -49.392 1 17.14 ? N1 ADP 598 A 1 HETATM 25 C C2 ADP . . . F 4 -26.01 -19.423 -48.773 1 18.63 ? C2 ADP 598 A 1 HETATM 26 N N3 ADP . . . F 4 -26.806 -19.034 -47.755 1 17.44 ? N3 ADP 598 A 1 HETATM 27 C C4 ADP . . . F 4 -26.537 -17.724 -47.387 1 17.87 ? C4 ADP 598 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #