data_7ZKE # _model_server_result.job_id 0oVuH0hv7wqX6pQMQ9sMNg _model_server_result.datetime_utc '2025-02-05 14:10:40' _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 7zke # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1902}' # _entry.id 7ZKE # _exptl.entry_id 7ZKE _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 6 _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 90 _cell.entry_id 7ZKE _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7ZKE _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? _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 6 _struct_asym.id F _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 D OD1 ASP 1433 E ASP 1433 1_555 E MG MG . E MG 1901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.781 ? metalc ? metalc2 E MG MG . E MG 1901 1_555 F O3B ADP . E ADP 1902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? hydrog WATSON-CRICK hydrog1 A N1 DG 3 A DG 3 1_555 B N3 DC 34 B DC 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 3 A DG 3 1_555 B O2 DC 34 B DC 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 3 A DG 3 1_555 B N4 DC 34 B DC 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 DC 4 A DC 4 1_555 B N1 DG 33 B DG 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N4 DC 4 A DC 4 1_555 B O6 DG 33 B DG 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O2 DC 4 A DC 4 1_555 B N2 DG 33 B DG 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N3 DC 5 A DC 5 1_555 B N1 DG 32 B DG 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N4 DC 5 A DC 5 1_555 B O6 DG 32 B DG 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O2 DC 5 A DC 5 1_555 B N2 DG 32 B DG 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N1 DG 6 A DG 6 1_555 B N3 DC 31 B DC 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N2 DG 6 A DG 6 1_555 B O2 DC 31 B DC 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O6 DG 6 A DG 6 1_555 B N4 DC 31 B DC 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DG 7 A DG 7 1_555 B N3 DC 30 B DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N2 DG 7 A DG 7 1_555 B O2 DC 30 B DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O6 DG 7 A DG 7 1_555 B N4 DC 30 B DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N1 DG 8 A DG 8 1_555 B N3 DC 29 B DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N2 DG 8 A DG 8 1_555 B O2 DC 29 B DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A O6 DG 8 A DG 8 1_555 B N4 DC 29 B DC 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N3 DC 9 A DC 9 1_555 B N1 DG 28 B DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N4 DC 9 A DC 9 1_555 B O6 DG 28 B DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A O2 DC 9 A DC 9 1_555 B N2 DG 28 B DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N1 DG 10 A DG 10 1_555 B N3 DC 27 B DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N2 DG 10 A DG 10 1_555 B O2 DC 27 B DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A O6 DG 10 A DG 10 1_555 B N4 DC 27 B DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N3 DC 11 A DC 11 1_555 B N1 DG 26 B DG 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A N4 DC 11 A DC 11 1_555 B O6 DG 26 B DG 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A O2 DC 11 A DC 11 1_555 B N2 DG 26 B DG 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 7ZKE _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 E 5 MG E 1 1901 1003 MG MG . F 6 ADP E 1 1902 1006 ADP ADP . G 7 BEF E 1 1903 1007 BEF BEF . # 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 6 135.242 149.331 188.922 1 98.46 ? PB ADP 1902 E 1 HETATM 2 O O1B ADP . . . F 6 135.898 149.163 187.576 1 84.97 ? O1B ADP 1902 E 1 HETATM 3 O O2B ADP . . . F 6 136.288 149.594 189.971 1 86.27 ? O2B ADP 1902 E 1 HETATM 4 O O3B ADP . . . F 6 134.486 148.077 189.284 1 103.78 ? O3B ADP 1902 E 1 HETATM 5 P PA ADP . . . F 6 132.986 150.679 189.969 1 81.78 ? PA ADP 1902 E 1 HETATM 6 O O1A ADP . . . F 6 131.743 150.11 189.343 1 73.88 ? O1A ADP 1902 E 1 HETATM 7 O O2A ADP . . . F 6 133.376 149.857 191.165 1 70.67 ? O2A ADP 1902 E 1 HETATM 8 O O3A ADP . . . F 6 134.205 150.601 188.883 1 79.99 ? O3A ADP 1902 E 1 HETATM 9 O O5' ADP . . . F 6 132.685 152.217 190.451 1 78.19 ? O5' ADP 1902 E 1 HETATM 10 C C5' ADP . . . F 6 131.592 152.399 191.301 1 94.61 ? C5' ADP 1902 E 1 HETATM 11 C C4' ADP . . . F 6 131.764 153.723 192.083 1 74.43 ? C4' ADP 1902 E 1 HETATM 12 O O4' ADP . . . F 6 131.089 154.668 191.493 1 65.78 ? O4' ADP 1902 E 1 HETATM 13 C C3' ADP . . . F 6 131.128 153.627 193.475 1 79.2 ? C3' ADP 1902 E 1 HETATM 14 O O3' ADP . . . F 6 131.664 154.583 194.268 1 86.41 ? O3' ADP 1902 E 1 HETATM 15 C C2' ADP . . . F 6 129.647 153.938 193.208 1 83.76 ? C2' ADP 1902 E 1 HETATM 16 O O2' ADP . . . F 6 129.026 154.533 194.427 1 92.37 ? O2' ADP 1902 E 1 HETATM 17 C C1' ADP . . . F 6 129.67 154.831 192.261 1 74.92 ? C1' ADP 1902 E 1 HETATM 18 N N9 ADP . . . F 6 128.584 154.632 191.34 1 67.51 ? N9 ADP 1902 E 1 HETATM 19 C C8 ADP . . . F 6 128.373 153.831 190.299 1 76.14 ? C8 ADP 1902 E 1 HETATM 20 N N7 ADP . . . F 6 127.161 154.098 189.811 1 70.37 ? N7 ADP 1902 E 1 HETATM 21 C C5 ADP . . . F 6 126.622 155.068 190.548 1 74.55 ? C5 ADP 1902 E 1 HETATM 22 C C6 ADP . . . F 6 125.412 155.708 190.481 1 78.45 ? C6 ADP 1902 E 1 HETATM 23 N N6 ADP . . . F 6 124.218 155.677 189.667 1 65.78 ? N6 ADP 1902 E 1 HETATM 24 N N1 ADP . . . F 6 125.115 156.651 191.347 1 77.6 ? N1 ADP 1902 E 1 HETATM 25 C C2 ADP . . . F 6 126.004 156.987 192.303 1 83.83 ? C2 ADP 1902 E 1 HETATM 26 N N3 ADP . . . F 6 127.196 156.358 192.372 1 89.77 ? N3 ADP 1902 E 1 HETATM 27 C C4 ADP . . . F 6 127.499 155.398 191.491 1 74.66 ? C4 ADP 1902 E 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #