data_6A20 # _model_server_result.job_id QCwyOq-pNTaIJR2PnybF_g _model_server_result.datetime_utc '2025-03-13 17:53:08' _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 6a20 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6A20 # _exptl.entry_id 6A20 _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 6A20 _cell.length_a 75.07 _cell.length_b 75.07 _cell.length_c 91.71 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6A20 _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32' # _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 _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 # 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 OG SER 110 A SER 110 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc2 B O1B ADP . A ADP 501 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc3 C MG MG . A MG 502 1_555 F O HOH . A HOH 639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc4 C MG MG . A MG 502 1_555 F O HOH . A HOH 673 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? metalc ? metalc5 C MG MG . A MG 502 1_555 F O HOH . A HOH 694 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc6 C MG MG . A MG 502 1_555 F O HOH . A HOH 730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? # _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 6A20 _atom_sites.fract_transf_matrix[1][1] 0.013321 _atom_sites.fract_transf_matrix[1][2] 0.007691 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015382 _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] 0.010904 _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 1 501 1 ADP ADP . C 3 MG A 1 502 1 MG MG . D 3 MG A 1 503 2 MG MG . E 4 P6G A 1 504 1 P6G P2K . F 5 HOH A 1 601 222 HOH HOH . F 5 HOH A 2 602 223 HOH HOH . F 5 HOH A 3 603 217 HOH HOH . F 5 HOH A 4 604 88 HOH HOH . F 5 HOH A 5 605 38 HOH HOH . F 5 HOH A 6 606 61 HOH HOH . F 5 HOH A 7 607 170 HOH HOH . F 5 HOH A 8 608 224 HOH HOH . F 5 HOH A 9 609 26 HOH HOH . F 5 HOH A 10 610 37 HOH HOH . F 5 HOH A 11 611 56 HOH HOH . F 5 HOH A 12 612 87 HOH HOH . F 5 HOH A 13 613 232 HOH HOH . F 5 HOH A 14 614 67 HOH HOH . F 5 HOH A 15 615 40 HOH HOH . F 5 HOH A 16 616 106 HOH HOH . F 5 HOH A 17 617 124 HOH HOH . F 5 HOH A 18 618 32 HOH HOH . F 5 HOH A 19 619 114 HOH HOH . F 5 HOH A 20 620 7 HOH HOH . F 5 HOH A 21 621 71 HOH HOH . F 5 HOH A 22 622 49 HOH HOH . F 5 HOH A 23 623 231 HOH HOH . F 5 HOH A 24 624 98 HOH HOH . F 5 HOH A 25 625 57 HOH HOH . F 5 HOH A 26 626 63 HOH HOH . F 5 HOH A 27 627 34 HOH HOH . F 5 HOH A 28 628 227 HOH HOH . F 5 HOH A 29 629 82 HOH HOH . F 5 HOH A 30 630 13 HOH HOH . F 5 HOH A 31 631 79 HOH HOH . F 5 HOH A 32 632 20 HOH HOH . F 5 HOH A 33 633 42 HOH HOH . F 5 HOH A 34 634 10 HOH HOH . F 5 HOH A 35 635 228 HOH HOH . F 5 HOH A 36 636 221 HOH HOH . F 5 HOH A 37 637 219 HOH HOH . F 5 HOH A 38 638 141 HOH HOH . F 5 HOH A 39 639 181 HOH HOH . F 5 HOH A 40 640 110 HOH HOH . F 5 HOH A 41 641 77 HOH HOH . F 5 HOH A 42 642 149 HOH HOH . F 5 HOH A 43 643 226 HOH HOH . F 5 HOH A 44 644 138 HOH HOH . F 5 HOH A 45 645 162 HOH HOH . F 5 HOH A 46 646 31 HOH HOH . F 5 HOH A 47 647 29 HOH HOH . F 5 HOH A 48 648 204 HOH HOH . F 5 HOH A 49 649 121 HOH HOH . F 5 HOH A 50 650 78 HOH HOH . F 5 HOH A 51 651 19 HOH HOH . F 5 HOH A 52 652 99 HOH HOH . F 5 HOH A 53 653 6 HOH HOH . F 5 HOH A 54 654 230 HOH HOH . F 5 HOH A 55 655 159 HOH HOH . F 5 HOH A 56 656 229 HOH HOH . F 5 HOH A 57 657 28 HOH HOH . F 5 HOH A 58 658 165 HOH HOH . F 5 HOH A 59 659 127 HOH HOH . F 5 HOH A 60 660 12 HOH HOH . F 5 HOH A 61 661 8 HOH HOH . F 5 HOH A 62 662 30 HOH HOH . F 5 HOH A 63 663 5 HOH HOH . F 5 HOH A 64 664 120 HOH HOH . F 5 HOH A 65 665 39 HOH HOH . F 5 HOH A 66 666 4 HOH HOH . F 5 HOH A 67 667 193 HOH HOH . F 5 HOH A 68 668 91 HOH HOH . F 5 HOH A 69 669 22 HOH HOH . F 5 HOH A 70 670 9 HOH HOH . F 5 HOH A 71 671 52 HOH HOH . F 5 HOH A 72 672 216 HOH HOH . F 5 HOH A 73 673 123 HOH HOH . F 5 HOH A 74 674 58 HOH HOH . F 5 HOH A 75 675 46 HOH HOH . F 5 HOH A 76 676 15 HOH HOH . F 5 HOH A 77 677 154 HOH HOH . F 5 HOH A 78 678 85 HOH HOH . F 5 HOH A 79 679 24 HOH HOH . F 5 HOH A 80 680 17 HOH HOH . F 5 HOH A 81 681 54 HOH HOH . F 5 HOH A 82 682 92 HOH HOH . F 5 HOH A 83 683 220 HOH HOH . F 5 HOH A 84 684 201 HOH HOH . F 5 HOH A 85 685 2 HOH HOH . F 5 HOH A 86 686 213 HOH HOH . F 5 HOH A 87 687 147 HOH HOH . F 5 HOH A 88 688 116 HOH HOH . F 5 HOH A 89 689 3 HOH HOH . F 5 HOH A 90 690 137 HOH HOH . F 5 HOH A 91 691 132 HOH HOH . F 5 HOH A 92 692 51 HOH HOH . F 5 HOH A 93 693 95 HOH HOH . F 5 HOH A 94 694 122 HOH HOH . F 5 HOH A 95 695 109 HOH HOH . F 5 HOH A 96 696 69 HOH HOH . F 5 HOH A 97 697 70 HOH HOH . F 5 HOH A 98 698 148 HOH HOH . F 5 HOH A 99 699 177 HOH HOH . F 5 HOH A 100 700 136 HOH HOH . F 5 HOH A 101 701 195 HOH HOH . F 5 HOH A 102 702 183 HOH HOH . F 5 HOH A 103 703 53 HOH HOH . F 5 HOH A 104 704 14 HOH HOH . F 5 HOH A 105 705 211 HOH HOH . F 5 HOH A 106 706 157 HOH HOH . F 5 HOH A 107 707 48 HOH HOH . F 5 HOH A 108 708 76 HOH HOH . F 5 HOH A 109 709 155 HOH HOH . F 5 HOH A 110 710 11 HOH HOH . F 5 HOH A 111 711 72 HOH HOH . F 5 HOH A 112 712 101 HOH HOH . F 5 HOH A 113 713 66 HOH HOH . F 5 HOH A 114 714 100 HOH HOH . F 5 HOH A 115 715 202 HOH HOH . F 5 HOH A 116 716 207 HOH HOH . F 5 HOH A 117 717 25 HOH HOH . F 5 HOH A 118 718 119 HOH HOH . F 5 HOH A 119 719 23 HOH HOH . F 5 HOH A 120 720 50 HOH HOH . F 5 HOH A 121 721 182 HOH HOH . F 5 HOH A 122 722 144 HOH HOH . F 5 HOH A 123 723 189 HOH HOH . F 5 HOH A 124 724 107 HOH HOH . F 5 HOH A 125 725 68 HOH HOH . F 5 HOH A 126 726 97 HOH HOH . F 5 HOH A 127 727 35 HOH HOH . F 5 HOH A 128 728 65 HOH HOH . F 5 HOH A 129 729 212 HOH HOH . F 5 HOH A 130 730 210 HOH HOH . F 5 HOH A 131 731 86 HOH HOH . F 5 HOH A 132 732 75 HOH HOH . F 5 HOH A 133 733 200 HOH HOH . F 5 HOH A 134 734 45 HOH HOH . F 5 HOH A 135 735 111 HOH HOH . F 5 HOH A 136 736 60 HOH HOH . F 5 HOH A 137 737 16 HOH HOH . F 5 HOH A 138 738 178 HOH HOH . F 5 HOH A 139 739 59 HOH HOH . F 5 HOH A 140 740 214 HOH HOH . F 5 HOH A 141 741 81 HOH HOH . F 5 HOH A 142 742 203 HOH HOH . F 5 HOH A 143 743 161 HOH HOH . F 5 HOH A 144 744 145 HOH HOH . F 5 HOH A 145 745 218 HOH HOH . F 5 HOH A 146 746 44 HOH HOH . F 5 HOH A 147 747 96 HOH HOH . F 5 HOH A 148 748 80 HOH HOH . F 5 HOH A 149 749 160 HOH HOH . F 5 HOH A 150 750 205 HOH HOH . F 5 HOH A 151 751 164 HOH HOH . F 5 HOH A 152 752 135 HOH HOH . F 5 HOH A 153 753 93 HOH HOH . F 5 HOH A 154 754 112 HOH HOH . F 5 HOH A 155 755 150 HOH HOH . F 5 HOH A 156 756 225 HOH HOH . F 5 HOH A 157 757 206 HOH HOH . F 5 HOH A 158 758 102 HOH HOH . F 5 HOH A 159 759 108 HOH HOH . F 5 HOH A 160 760 174 HOH HOH . F 5 HOH A 161 761 166 HOH HOH . F 5 HOH A 162 762 187 HOH HOH . F 5 HOH A 163 763 118 HOH HOH . F 5 HOH A 164 764 117 HOH HOH . F 5 HOH A 165 765 104 HOH HOH . F 5 HOH A 166 766 83 HOH HOH . F 5 HOH A 167 767 215 HOH HOH . F 5 HOH A 168 768 146 HOH HOH . F 5 HOH A 169 769 129 HOH HOH . F 5 HOH A 170 770 128 HOH HOH . F 5 HOH A 171 771 180 HOH HOH . F 5 HOH A 172 772 33 HOH HOH . F 5 HOH A 173 773 113 HOH HOH . F 5 HOH A 174 774 74 HOH HOH . F 5 HOH A 175 775 73 HOH HOH . F 5 HOH A 176 776 140 HOH HOH . F 5 HOH A 177 777 186 HOH HOH . F 5 HOH A 178 778 89 HOH HOH . F 5 HOH A 179 779 191 HOH HOH . F 5 HOH A 180 780 196 HOH HOH . F 5 HOH A 181 781 168 HOH HOH . F 5 HOH A 182 782 94 HOH HOH . F 5 HOH A 183 783 125 HOH HOH . F 5 HOH A 184 784 142 HOH HOH . F 5 HOH A 185 785 167 HOH HOH . F 5 HOH A 186 786 90 HOH HOH . F 5 HOH A 187 787 176 HOH HOH . F 5 HOH A 188 788 156 HOH HOH . F 5 HOH A 189 789 130 HOH HOH . F 5 HOH A 190 790 179 HOH HOH . F 5 HOH A 191 791 43 HOH HOH . F 5 HOH A 192 792 171 HOH HOH . F 5 HOH A 193 793 139 HOH HOH . F 5 HOH A 194 794 208 HOH HOH . F 5 HOH A 195 795 173 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 8.239 -0.378 2.059 1 48.75 ? PB ADP 501 A 1 HETATM 2 O O1B ADP . . . B 2 9.216 -0.85 1.031 1 27.43 ? O1B ADP 501 A 1 HETATM 3 O O2B ADP . . . B 2 8.472 -1.078 3.309 1 38.78 ? O2B ADP 501 A 1 HETATM 4 O O3B ADP . . . B 2 8.411 1.104 2.274 1 45.86 ? O3B ADP 501 A 1 HETATM 5 P PA ADP . . . B 2 6.395 -1.829 0.55 1 49.82 ? PA ADP 501 A 1 HETATM 6 O O1A ADP . . . B 2 6.924 -1.474 -0.845 1 57.19 ? O1A ADP 501 A 1 HETATM 7 O O2A ADP . . . B 2 7.031 -3.158 1.014 1 47.89 ? O2A ADP 501 A 1 HETATM 8 O O3A ADP . . . B 2 6.787 -0.656 1.564 1 51.74 ? O3A ADP 501 A 1 HETATM 9 O O5' ADP . . . B 2 4.807 -1.969 0.488 1 43.05 ? O5' ADP 501 A 1 HETATM 10 C C5' ADP . . . B 2 4.147 -2.925 1.341 1 32.26 ? C5' ADP 501 A 1 HETATM 11 C C4' ADP . . . B 2 2.838 -3.447 0.613 1 57.82 ? C4' ADP 501 A 1 HETATM 12 O O4' ADP . . . B 2 1.687 -2.421 0.783 1 45.16 ? O4' ADP 501 A 1 HETATM 13 C C3' ADP . . . B 2 3.043 -3.537 -0.651 1 55.56 ? C3' ADP 501 A 1 HETATM 14 O O3' ADP . . . B 2 3.39 -4.928 -1.013 1 60.43 ? O3' ADP 501 A 1 HETATM 15 C C2' ADP . . . B 2 1.639 -3.107 -1.371 1 52.91 ? C2' ADP 501 A 1 HETATM 16 O O2' ADP . . . B 2 0.73 -4.26 -1.415 1 51.29 ? O2' ADP 501 A 1 HETATM 17 C C1' ADP . . . B 2 1.135 -2.174 -0.639 1 51.02 ? C1' ADP 501 A 1 HETATM 18 N N9 ADP . . . B 2 1.552 -0.885 -1.095 1 41.49 ? N9 ADP 501 A 1 HETATM 19 C C8 ADP . . . B 2 2.555 -0.049 -0.851 1 40.82 ? C8 ADP 501 A 1 HETATM 20 N N7 ADP . . . B 2 2.347 1.03 -1.635 1 23.84 ? N7 ADP 501 A 1 HETATM 21 C C5 ADP . . . B 2 1.207 0.835 -2.353 1 26.63 ? C5 ADP 501 A 1 HETATM 22 C C6 ADP . . . B 2 0.545 1.636 -3.303 1 36.32 ? C6 ADP 501 A 1 HETATM 23 N N6 ADP . . . B 2 0.897 2.928 -3.803 1 32.2 ? N6 ADP 501 A 1 HETATM 24 N N1 ADP . . . B 2 -0.58 1.202 -3.872 1 30.92 ? N1 ADP 501 A 1 HETATM 25 C C2 ADP . . . B 2 -1.094 -0.022 -3.531 1 37.32 ? C2 ADP 501 A 1 HETATM 26 N N3 ADP . . . B 2 -0.456 -0.798 -2.609 1 38.39 ? N3 ADP 501 A 1 HETATM 27 C C4 ADP . . . B 2 0.705 -0.351 -2.024 1 33.93 ? C4 ADP 501 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #