data_4U0S # _model_server_result.job_id XzA-JizUM0-DEfgJ_mgD6A _model_server_result.datetime_utc '2024-11-04 23:09:02' _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 4u0s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 4U0S # _exptl.entry_id 4U0S _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 107.56 _cell.angle_gamma 90 _cell.entry_id 4U0S _cell.length_a 71.04 _cell.length_b 76.01 _cell.length_c 92.03 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4U0S _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 Dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 ? 2 C N N ? 2 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 OD1 ASP 266 A ASP 367 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? metalc ? metalc2 C O3B ADP . A ADP 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc3 C O1A ADP . A ADP 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc4 D MG MG . A MG 502 1_555 I O HOH . A HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc5 B OD1 ASP 266 B ASP 367 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc6 B OD2 ASP 266 B ASP 367 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.894 ? metalc ? metalc7 F O2B ADP . B ADP 501 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.626 ? metalc ? metalc8 F O1A ADP . B ADP 501 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.878 ? metalc ? metalc9 G MG MG . B MG 502 1_555 J O HOH . B HOH 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.902 ? metalc ? metalc10 G MG MG . B MG 502 1_555 J O HOH . B HOH 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.952 ? # _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 4U0S _atom_sites.fract_transf_matrix[1][1] 0.014077 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004455 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013156 _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] 0.011397 _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 C 2 ADP A 1 501 1 ADP ADP . D 3 MG A 1 502 1 MG MG . E 4 PG4 A 1 503 2 PG4 PEG . F 2 ADP B 1 501 2 ADP ADP . G 3 MG B 1 502 2 MG MG . H 4 PG4 B 1 503 1 PG4 PEG . I 5 HOH A 1 601 130 HOH HOH . I 5 HOH A 2 602 124 HOH HOH . I 5 HOH A 3 603 40 HOH HOH . I 5 HOH A 4 604 115 HOH HOH . I 5 HOH A 5 605 42 HOH HOH . I 5 HOH A 6 606 41 HOH HOH . I 5 HOH A 7 607 31 HOH HOH . I 5 HOH A 8 608 10 HOH HOH . I 5 HOH A 9 609 15 HOH HOH . I 5 HOH A 10 610 4 HOH HOH . I 5 HOH A 11 611 5 HOH HOH . I 5 HOH A 12 612 6 HOH HOH . I 5 HOH A 13 613 1 HOH HOH . I 5 HOH A 14 614 2 HOH HOH . I 5 HOH A 15 615 4 HOH HOH . I 5 HOH A 16 616 5 HOH HOH . I 5 HOH A 17 617 6 HOH HOH . I 5 HOH A 18 618 7 HOH HOH . I 5 HOH A 19 619 8 HOH HOH . I 5 HOH A 20 620 9 HOH HOH . I 5 HOH A 21 621 11 HOH HOH . I 5 HOH A 22 622 16 HOH HOH . I 5 HOH A 23 623 17 HOH HOH . I 5 HOH A 24 624 18 HOH HOH . I 5 HOH A 25 625 19 HOH HOH . I 5 HOH A 26 626 20 HOH HOH . I 5 HOH A 27 627 21 HOH HOH . I 5 HOH A 28 628 22 HOH HOH . I 5 HOH A 29 629 23 HOH HOH . I 5 HOH A 30 630 24 HOH HOH . I 5 HOH A 31 631 25 HOH HOH . I 5 HOH A 32 632 26 HOH HOH . I 5 HOH A 33 633 27 HOH HOH . I 5 HOH A 34 634 28 HOH HOH . I 5 HOH A 35 635 30 HOH HOH . I 5 HOH A 36 636 33 HOH HOH . I 5 HOH A 37 637 34 HOH HOH . I 5 HOH A 38 638 35 HOH HOH . I 5 HOH A 39 639 36 HOH HOH . I 5 HOH A 40 640 37 HOH HOH . I 5 HOH A 41 641 38 HOH HOH . I 5 HOH A 42 642 39 HOH HOH . I 5 HOH A 43 643 43 HOH HOH . I 5 HOH A 44 644 44 HOH HOH . I 5 HOH A 45 645 45 HOH HOH . I 5 HOH A 46 646 46 HOH HOH . I 5 HOH A 47 647 47 HOH HOH . I 5 HOH A 48 648 48 HOH HOH . I 5 HOH A 49 649 49 HOH HOH . I 5 HOH A 50 650 51 HOH HOH . I 5 HOH A 51 651 52 HOH HOH . I 5 HOH A 52 652 55 HOH HOH . I 5 HOH A 53 653 57 HOH HOH . I 5 HOH A 54 654 58 HOH HOH . I 5 HOH A 55 655 60 HOH HOH . I 5 HOH A 56 656 61 HOH HOH . I 5 HOH A 57 657 62 HOH HOH . I 5 HOH A 58 658 63 HOH HOH . I 5 HOH A 59 659 65 HOH HOH . I 5 HOH A 60 660 66 HOH HOH . I 5 HOH A 61 661 68 HOH HOH . I 5 HOH A 62 662 69 HOH HOH . I 5 HOH A 63 663 71 HOH HOH . I 5 HOH A 64 664 74 HOH HOH . I 5 HOH A 65 665 75 HOH HOH . I 5 HOH A 66 666 77 HOH HOH . I 5 HOH A 67 667 78 HOH HOH . I 5 HOH A 68 668 79 HOH HOH . I 5 HOH A 69 669 82 HOH HOH . I 5 HOH A 70 670 84 HOH HOH . I 5 HOH A 71 671 87 HOH HOH . I 5 HOH A 72 672 89 HOH HOH . I 5 HOH A 73 673 91 HOH HOH . I 5 HOH A 74 674 92 HOH HOH . I 5 HOH A 75 675 94 HOH HOH . I 5 HOH A 76 676 97 HOH HOH . I 5 HOH A 77 677 98 HOH HOH . I 5 HOH A 78 678 99 HOH HOH . I 5 HOH A 79 679 100 HOH HOH . I 5 HOH A 80 680 101 HOH HOH . I 5 HOH A 81 681 102 HOH HOH . I 5 HOH A 82 682 103 HOH HOH . I 5 HOH A 83 683 104 HOH HOH . I 5 HOH A 84 684 105 HOH HOH . I 5 HOH A 85 685 106 HOH HOH . I 5 HOH A 86 686 107 HOH HOH . I 5 HOH A 87 687 108 HOH HOH . I 5 HOH A 88 688 109 HOH HOH . I 5 HOH A 89 689 112 HOH HOH . I 5 HOH A 90 690 113 HOH HOH . I 5 HOH A 91 691 114 HOH HOH . I 5 HOH A 92 692 119 HOH HOH . I 5 HOH A 93 693 121 HOH HOH . I 5 HOH A 94 694 122 HOH HOH . I 5 HOH A 95 695 125 HOH HOH . I 5 HOH A 96 696 126 HOH HOH . I 5 HOH A 97 697 129 HOH HOH . I 5 HOH A 98 698 131 HOH HOH . I 5 HOH A 99 699 132 HOH HOH . I 5 HOH A 100 700 134 HOH HOH . I 5 HOH A 101 701 135 HOH HOH . I 5 HOH A 102 702 136 HOH HOH . I 5 HOH A 103 703 138 HOH HOH . I 5 HOH A 104 704 144 HOH HOH . I 5 HOH A 105 705 146 HOH HOH . I 5 HOH A 106 706 149 HOH HOH . I 5 HOH A 107 707 151 HOH HOH . I 5 HOH A 108 708 153 HOH HOH . I 5 HOH A 109 709 154 HOH HOH . I 5 HOH A 110 710 156 HOH HOH . I 5 HOH A 111 711 157 HOH HOH . I 5 HOH A 112 712 160 HOH HOH . I 5 HOH A 113 713 162 HOH HOH . J 5 HOH B 1 601 95 HOH HOH . J 5 HOH B 2 602 88 HOH HOH . J 5 HOH B 3 603 120 HOH HOH . J 5 HOH B 4 604 158 HOH HOH . J 5 HOH B 5 605 1 HOH HOH . J 5 HOH B 6 606 2 HOH HOH . J 5 HOH B 7 607 3 HOH HOH . J 5 HOH B 8 608 3 HOH HOH . J 5 HOH B 9 609 12 HOH HOH . J 5 HOH B 10 610 13 HOH HOH . J 5 HOH B 11 611 14 HOH HOH . J 5 HOH B 12 612 29 HOH HOH . J 5 HOH B 13 613 32 HOH HOH . J 5 HOH B 14 614 50 HOH HOH . J 5 HOH B 15 615 53 HOH HOH . J 5 HOH B 16 616 54 HOH HOH . J 5 HOH B 17 617 56 HOH HOH . J 5 HOH B 18 618 59 HOH HOH . J 5 HOH B 19 619 64 HOH HOH . J 5 HOH B 20 620 67 HOH HOH . J 5 HOH B 21 621 70 HOH HOH . J 5 HOH B 22 622 72 HOH HOH . J 5 HOH B 23 623 73 HOH HOH . J 5 HOH B 24 624 76 HOH HOH . J 5 HOH B 25 625 80 HOH HOH . J 5 HOH B 26 626 81 HOH HOH . J 5 HOH B 27 627 83 HOH HOH . J 5 HOH B 28 628 85 HOH HOH . J 5 HOH B 29 629 86 HOH HOH . J 5 HOH B 30 630 90 HOH HOH . J 5 HOH B 31 631 93 HOH HOH . J 5 HOH B 32 632 96 HOH HOH . J 5 HOH B 33 633 110 HOH HOH . J 5 HOH B 34 634 111 HOH HOH . J 5 HOH B 35 635 116 HOH HOH . J 5 HOH B 36 636 117 HOH HOH . J 5 HOH B 37 637 118 HOH HOH . J 5 HOH B 38 638 123 HOH HOH . J 5 HOH B 39 639 127 HOH HOH . J 5 HOH B 40 640 128 HOH HOH . J 5 HOH B 41 641 133 HOH HOH . J 5 HOH B 42 642 137 HOH HOH . J 5 HOH B 43 643 139 HOH HOH . J 5 HOH B 44 644 140 HOH HOH . J 5 HOH B 45 645 141 HOH HOH . J 5 HOH B 46 646 142 HOH HOH . J 5 HOH B 47 647 143 HOH HOH . J 5 HOH B 48 648 145 HOH HOH . J 5 HOH B 49 649 147 HOH HOH . J 5 HOH B 50 650 148 HOH HOH . J 5 HOH B 51 651 150 HOH HOH . J 5 HOH B 52 652 152 HOH HOH . J 5 HOH B 53 653 155 HOH HOH . J 5 HOH B 54 654 159 HOH HOH . J 5 HOH B 55 655 161 HOH HOH . J 5 HOH B 56 656 163 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 . . . C 2 -10.556 -87.483 94.493 1 31.61 ? PB ADP 501 A 1 HETATM 2 O O1B ADP . . . C 2 -10.71 -86.82 93.162 1 30.86 ? O1B ADP 501 A 1 HETATM 3 O O2B ADP . . . C 2 -11.137 -86.525 95.514 1 32.21 ? O2B ADP 501 A 1 HETATM 4 O O3B ADP . . . C 2 -11.249 -88.777 94.46 1 39.5 ? O3B ADP 501 A 1 HETATM 5 P PA ADP . . . C 2 -8.104 -89.066 94.563 1 28.45 ? PA ADP 501 A 1 HETATM 6 O O1A ADP . . . C 2 -8.897 -89.988 93.662 0.5 21.47 ? O1A ADP 501 A 1 HETATM 7 O O2A ADP . . . C 2 -7.975 -89.759 95.868 1 32.84 ? O2A ADP 501 A 1 HETATM 8 O O3A ADP . . . C 2 -9.004 -87.756 94.786 0.5 28.6 ? O3A ADP 501 A 1 HETATM 9 O O5' ADP . . . C 2 -6.789 -88.648 93.822 0.5 14.04 ? O5' ADP 501 A 1 HETATM 10 C C5' ADP . . . C 2 -6.842 -87.886 92.609 0.5 9.75 ? C5' ADP 501 A 1 HETATM 11 C C4' ADP . . . C 2 -6.092 -86.606 92.852 0.5 10.53 ? C4' ADP 501 A 1 HETATM 12 O O4' ADP . . . C 2 -4.685 -86.889 92.813 0.5 12.97 ? O4' ADP 501 A 1 HETATM 13 C C3' ADP . . . C 2 -6.319 -85.549 91.792 0.5 7.2 ? C3' ADP 501 A 1 HETATM 14 O O3' ADP . . . C 2 -7.326 -84.677 92.257 0.5 10.59 ? O3' ADP 501 A 1 HETATM 15 C C2' ADP . . . C 2 -5.024 -84.76 91.792 0.5 8.25 ? C2' ADP 501 A 1 HETATM 16 O O2' ADP . . . C 2 -5.19 -83.627 92.623 0.5 12.49 ? O2' ADP 501 A 1 HETATM 17 C C1' ADP . . . C 2 -3.994 -85.754 92.341 0.5 11.24 ? C1' ADP 501 A 1 HETATM 18 N N9 ADP . . . C 2 -2.997 -86.194 91.37 0.5 9.14 ? N9 ADP 501 A 1 HETATM 19 C C8 ADP . . . C 2 -3.194 -86.445 90.038 0.5 11.87 ? C8 ADP 501 A 1 HETATM 20 N N7 ADP . . . C 2 -2.1 -86.749 89.384 0.5 12.93 ? N7 ADP 501 A 1 HETATM 21 C C5 ADP . . . C 2 -1.114 -86.707 90.357 0.5 9.3 ? C5 ADP 501 A 1 HETATM 22 C C6 ADP . . . C 2 0.276 -86.907 90.303 0.5 9.49 ? C6 ADP 501 A 1 HETATM 23 N N6 ADP . . . C 2 0.933 -87.168 89.18 0.5 14.25 ? N6 ADP 501 A 1 HETATM 24 N N1 ADP . . . C 2 0.979 -86.754 91.448 0.5 7.98 ? N1 ADP 501 A 1 HETATM 25 C C2 ADP . . . C 2 0.323 -86.409 92.564 0.5 5.51 ? C2 ADP 501 A 1 HETATM 26 N N3 ADP . . . C 2 -0.986 -86.208 92.736 0.5 3 ? N3 ADP 501 A 1 HETATM 27 C C4 ADP . . . C 2 -1.653 -86.371 91.588 0.5 4.97 ? C4 ADP 501 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 27 #