data_4U0U # _model_server_result.job_id dBhAwUroTUtjDCW9PCeNtw _model_server_result.datetime_utc '2024-12-21 12:02:53' _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 4u0u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":503}' # _entry.id 4U0U # _exptl.entry_id 4U0U _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _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 4U0U _cell.length_a 77.75 _cell.length_b 109.04 _cell.length_c 131.6 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4U0U _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details Dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,I,J,K _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 ? 3 E N N ? 3 H 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 F MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc2 E O3B ADP . A ADP 503 1_555 F MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc3 E O2A ADP . A ADP 503 1_555 F MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc4 F MG MG . A MG 504 1_555 J O HOH . A HOH 687 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.909 ? metalc ? metalc5 B OD1 ASP 266 B ASP 367 1_555 I MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.796 ? metalc ? metalc6 H O1B ADP . B ADP 502 1_555 I MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc7 H O2B ADP . B ADP 502 1_555 I MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.791 ? metalc ? metalc8 H O1A ADP . B ADP 502 1_555 I MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.753 ? metalc ? metalc9 I MG MG . B MG 503 1_555 K O HOH . B HOH 653 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? metalc ? metalc10 I MG MG . B MG 503 1_555 K O HOH . B HOH 676 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? # _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 4U0U _atom_sites.fract_transf_matrix[1][1] 0.012862 _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] 0.009171 _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] 0.007599 _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 PG4 A 1 501 1 PG4 PEG . D 2 PG4 A 1 502 2 PG4 PEG . E 3 ADP A 1 503 1 ADP ADP . F 4 MG A 1 504 2 MG MG . G 2 PG4 B 1 501 3 PG4 PEG . H 3 ADP B 1 502 2 ADP ADP . I 4 MG B 1 503 1 MG MG . J 5 HOH A 1 601 149 HOH HOH . J 5 HOH A 2 602 47 HOH HOH . J 5 HOH A 3 603 130 HOH HOH . J 5 HOH A 4 604 27 HOH HOH . J 5 HOH A 5 605 6 HOH HOH . J 5 HOH A 6 606 11 HOH HOH . J 5 HOH A 7 607 4 HOH HOH . J 5 HOH A 8 608 12 HOH HOH . J 5 HOH A 9 609 101 HOH HOH . J 5 HOH A 10 610 158 HOH HOH . J 5 HOH A 11 611 70 HOH HOH . J 5 HOH A 12 612 5 HOH HOH . J 5 HOH A 13 613 7 HOH HOH . J 5 HOH A 14 614 8 HOH HOH . J 5 HOH A 15 615 10 HOH HOH . J 5 HOH A 16 616 13 HOH HOH . J 5 HOH A 17 617 15 HOH HOH . J 5 HOH A 18 618 16 HOH HOH . J 5 HOH A 19 619 17 HOH HOH . J 5 HOH A 20 620 18 HOH HOH . J 5 HOH A 21 621 20 HOH HOH . J 5 HOH A 22 622 22 HOH HOH . J 5 HOH A 23 623 23 HOH HOH . J 5 HOH A 24 624 26 HOH HOH . J 5 HOH A 25 625 29 HOH HOH . J 5 HOH A 26 626 31 HOH HOH . J 5 HOH A 27 627 32 HOH HOH . J 5 HOH A 28 628 33 HOH HOH . J 5 HOH A 29 629 34 HOH HOH . J 5 HOH A 30 630 35 HOH HOH . J 5 HOH A 31 631 36 HOH HOH . J 5 HOH A 32 632 37 HOH HOH . J 5 HOH A 33 633 39 HOH HOH . J 5 HOH A 34 634 40 HOH HOH . J 5 HOH A 35 635 43 HOH HOH . J 5 HOH A 36 636 44 HOH HOH . J 5 HOH A 37 637 48 HOH HOH . J 5 HOH A 38 638 50 HOH HOH . J 5 HOH A 39 639 51 HOH HOH . J 5 HOH A 40 640 54 HOH HOH . J 5 HOH A 41 641 59 HOH HOH . J 5 HOH A 42 642 60 HOH HOH . J 5 HOH A 43 643 63 HOH HOH . J 5 HOH A 44 644 66 HOH HOH . J 5 HOH A 45 645 68 HOH HOH . J 5 HOH A 46 646 73 HOH HOH . J 5 HOH A 47 647 74 HOH HOH . J 5 HOH A 48 648 75 HOH HOH . J 5 HOH A 49 649 77 HOH HOH . J 5 HOH A 50 650 81 HOH HOH . J 5 HOH A 51 651 82 HOH HOH . J 5 HOH A 52 652 83 HOH HOH . J 5 HOH A 53 653 86 HOH HOH . J 5 HOH A 54 654 87 HOH HOH . J 5 HOH A 55 655 90 HOH HOH . J 5 HOH A 56 656 91 HOH HOH . J 5 HOH A 57 657 92 HOH HOH . J 5 HOH A 58 658 95 HOH HOH . J 5 HOH A 59 659 96 HOH HOH . J 5 HOH A 60 660 97 HOH HOH . J 5 HOH A 61 661 99 HOH HOH . J 5 HOH A 62 662 100 HOH HOH . J 5 HOH A 63 663 105 HOH HOH . J 5 HOH A 64 664 106 HOH HOH . J 5 HOH A 65 665 108 HOH HOH . J 5 HOH A 66 666 110 HOH HOH . J 5 HOH A 67 667 111 HOH HOH . J 5 HOH A 68 668 112 HOH HOH . J 5 HOH A 69 669 113 HOH HOH . J 5 HOH A 70 670 114 HOH HOH . J 5 HOH A 71 671 117 HOH HOH . J 5 HOH A 72 672 122 HOH HOH . J 5 HOH A 73 673 123 HOH HOH . J 5 HOH A 74 674 124 HOH HOH . J 5 HOH A 75 675 125 HOH HOH . J 5 HOH A 76 676 126 HOH HOH . J 5 HOH A 77 677 132 HOH HOH . J 5 HOH A 78 678 139 HOH HOH . J 5 HOH A 79 679 142 HOH HOH . J 5 HOH A 80 680 144 HOH HOH . J 5 HOH A 81 681 147 HOH HOH . J 5 HOH A 82 682 153 HOH HOH . J 5 HOH A 83 683 154 HOH HOH . J 5 HOH A 84 684 155 HOH HOH . J 5 HOH A 85 685 157 HOH HOH . J 5 HOH A 86 686 161 HOH HOH . J 5 HOH A 87 687 163 HOH HOH . K 5 HOH B 1 601 148 HOH HOH . K 5 HOH B 2 602 102 HOH HOH . K 5 HOH B 3 603 42 HOH HOH . K 5 HOH B 4 604 127 HOH HOH . K 5 HOH B 5 605 134 HOH HOH . K 5 HOH B 6 606 159 HOH HOH . K 5 HOH B 7 607 119 HOH HOH . K 5 HOH B 8 608 71 HOH HOH . K 5 HOH B 9 609 1 HOH HOH . K 5 HOH B 10 610 2 HOH HOH . K 5 HOH B 11 611 3 HOH HOH . K 5 HOH B 12 612 9 HOH HOH . K 5 HOH B 13 613 14 HOH HOH . K 5 HOH B 14 614 19 HOH HOH . K 5 HOH B 15 615 21 HOH HOH . K 5 HOH B 16 616 24 HOH HOH . K 5 HOH B 17 617 25 HOH HOH . K 5 HOH B 18 618 28 HOH HOH . K 5 HOH B 19 619 30 HOH HOH . K 5 HOH B 20 620 38 HOH HOH . K 5 HOH B 21 621 41 HOH HOH . K 5 HOH B 22 622 45 HOH HOH . K 5 HOH B 23 623 46 HOH HOH . K 5 HOH B 24 624 49 HOH HOH . K 5 HOH B 25 625 52 HOH HOH . K 5 HOH B 26 626 53 HOH HOH . K 5 HOH B 27 627 55 HOH HOH . K 5 HOH B 28 628 56 HOH HOH . K 5 HOH B 29 629 57 HOH HOH . K 5 HOH B 30 630 58 HOH HOH . K 5 HOH B 31 631 61 HOH HOH . K 5 HOH B 32 632 62 HOH HOH . K 5 HOH B 33 633 64 HOH HOH . K 5 HOH B 34 634 65 HOH HOH . K 5 HOH B 35 635 67 HOH HOH . K 5 HOH B 36 636 69 HOH HOH . K 5 HOH B 37 637 72 HOH HOH . K 5 HOH B 38 638 76 HOH HOH . K 5 HOH B 39 639 78 HOH HOH . K 5 HOH B 40 640 79 HOH HOH . K 5 HOH B 41 641 80 HOH HOH . K 5 HOH B 42 642 84 HOH HOH . K 5 HOH B 43 643 85 HOH HOH . K 5 HOH B 44 644 88 HOH HOH . K 5 HOH B 45 645 89 HOH HOH . K 5 HOH B 46 646 93 HOH HOH . K 5 HOH B 47 647 94 HOH HOH . K 5 HOH B 48 648 98 HOH HOH . K 5 HOH B 49 649 103 HOH HOH . K 5 HOH B 50 650 104 HOH HOH . K 5 HOH B 51 651 107 HOH HOH . K 5 HOH B 52 652 109 HOH HOH . K 5 HOH B 53 653 115 HOH HOH . K 5 HOH B 54 654 116 HOH HOH . K 5 HOH B 55 655 118 HOH HOH . K 5 HOH B 56 656 120 HOH HOH . K 5 HOH B 57 657 121 HOH HOH . K 5 HOH B 58 658 128 HOH HOH . K 5 HOH B 59 659 129 HOH HOH . K 5 HOH B 60 660 131 HOH HOH . K 5 HOH B 61 661 133 HOH HOH . K 5 HOH B 62 662 135 HOH HOH . K 5 HOH B 63 663 136 HOH HOH . K 5 HOH B 64 664 137 HOH HOH . K 5 HOH B 65 665 138 HOH HOH . K 5 HOH B 66 666 140 HOH HOH . K 5 HOH B 67 667 141 HOH HOH . K 5 HOH B 68 668 143 HOH HOH . K 5 HOH B 69 669 145 HOH HOH . K 5 HOH B 70 670 146 HOH HOH . K 5 HOH B 71 671 150 HOH HOH . K 5 HOH B 72 672 151 HOH HOH . K 5 HOH B 73 673 152 HOH HOH . K 5 HOH B 74 674 156 HOH HOH . K 5 HOH B 75 675 160 HOH HOH . K 5 HOH B 76 676 162 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 . . . E 3 87.757 20.212 17.796 0.5 17.28 ? PB ADP 503 A 1 HETATM 2 O O1B ADP . . . E 3 87.065 19.407 16.762 0.5 19.67 ? O1B ADP 503 A 1 HETATM 3 O O2B ADP . . . E 3 86.646 20.479 18.826 0.5 14.78 ? O2B ADP 503 A 1 HETATM 4 O O3B ADP . . . E 3 89.041 19.579 18.337 0.5 11.72 ? O3B ADP 503 A 1 HETATM 5 P PA ADP . . . E 3 89.254 22.028 16.112 0.5 26.58 ? PA ADP 503 A 1 HETATM 6 O O1A ADP . . . E 3 89.635 23.428 16.402 0.5 24.37 ? O1A ADP 503 A 1 HETATM 7 O O2A ADP . . . E 3 90.439 21.13 16.499 0.5 28.58 ? O2A ADP 503 A 1 HETATM 8 O O3A ADP . . . E 3 88.047 21.592 17.055 0.5 22.54 ? O3A ADP 503 A 1 HETATM 9 O O5' ADP . . . E 3 88.899 21.801 14.549 0.5 29.97 ? O5' ADP 503 A 1 HETATM 10 C C5' ADP . . . E 3 87.887 20.934 13.993 0.5 31.01 ? C5' ADP 503 A 1 HETATM 11 C C4' ADP . . . E 3 86.742 21.772 13.476 0.5 33.05 ? C4' ADP 503 A 1 HETATM 12 O O4' ADP . . . E 3 87.24 22.738 12.526 0.5 32.81 ? O4' ADP 503 A 1 HETATM 13 C C3' ADP . . . E 3 85.664 20.994 12.727 0.5 33.31 ? C3' ADP 503 A 1 HETATM 14 O O3' ADP . . . E 3 84.656 20.49 13.601 0.5 33.55 ? O3' ADP 503 A 1 HETATM 15 C C2' ADP . . . E 3 85.075 22.044 11.784 0.5 30.03 ? C2' ADP 503 A 1 HETATM 16 O O2' ADP . . . E 3 83.976 22.677 12.421 0.5 25.34 ? O2' ADP 503 A 1 HETATM 17 C C1' ADP . . . E 3 86.262 22.994 11.533 0.5 31.76 ? C1' ADP 503 A 1 HETATM 18 N N9 ADP . . . E 3 86.887 22.862 10.215 0.5 31.54 ? N9 ADP 503 A 1 HETATM 19 C C8 ADP . . . E 3 87.787 21.901 9.836 0.5 33.24 ? C8 ADP 503 A 1 HETATM 20 N N7 ADP . . . E 3 88.192 22.005 8.592 0.5 34.2 ? N7 ADP 503 A 1 HETATM 21 C C5 ADP . . . E 3 87.51 23.114 8.117 0.5 33.05 ? C5 ADP 503 A 1 HETATM 22 C C6 ADP . . . E 3 87.482 23.744 6.857 0.5 32.4 ? C6 ADP 503 A 1 HETATM 23 N N6 ADP . . . E 3 88.217 23.347 5.813 0.5 33.56 ? N6 ADP 503 A 1 HETATM 24 N N1 ADP . . . E 3 86.675 24.822 6.709 0.5 30.1 ? N1 ADP 503 A 1 HETATM 25 C C2 ADP . . . E 3 85.965 25.244 7.76 0.5 28.22 ? C2 ADP 503 A 1 HETATM 26 N N3 ADP . . . E 3 85.919 24.734 8.993 0.5 29.35 ? N3 ADP 503 A 1 HETATM 27 C C4 ADP . . . E 3 86.708 23.659 9.108 0.5 31.02 ? C4 ADP 503 A 1 # _model_server_stats.io_time_ms 37 _model_server_stats.parse_time_ms 87 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 1315 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 27 #