data_8VOX # _model_server_result.job_id qY7rq4WRpeLI-K6tv7hFNA _model_server_result.datetime_utc '2024-12-26 12:15:25' _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 8vox # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":801}' # _entry.id 8VOX # _exptl.entry_id 8VOX _exptl.method 'ELECTRON MICROSCOPY' # _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 90 _cell.angle_gamma 90 _cell.entry_id 8VOX _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VOX _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 ? _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 _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 E 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 OG1 THR 400 A THR 526 1_555 D MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? metalc ? metalc2 C O1B ADP . A ADP 801 1_555 D MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? metalc ? metalc3 C O3B ADP . A ADP 801 1_555 D MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? metalc ? metalc4 B OG1 THR 400 B THR 526 1_555 F MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.689 ? metalc ? metalc5 E O2B ADP . B ADP 801 1_555 F MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? metalc ? metalc6 E O3B ADP . B ADP 801 1_555 F MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc7 E O3A ADP . B ADP 801 1_555 F MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? # _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 8VOX _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 C 2 ADP A 1 801 801 ADP ADP . D 3 MG A 1 802 802 MG MG . E 2 ADP B 1 801 801 ADP ADP . F 3 MG B 1 802 802 MG MG . # 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 2 123.694 107.921 68.821 1 142.02 ? PB ADP 801 A 1 HETATM 2 O O1B ADP . . . C 2 125.158 108.278 68.759 1 143.07 ? O1B ADP 801 A 1 HETATM 3 O O2B ADP . . . C 2 123.041 107.74 67.475 1 132.4 ? O2B ADP 801 A 1 HETATM 4 O O3B ADP . . . C 2 122.891 108.73 69.806 1 135.55 ? O3B ADP 801 A 1 HETATM 5 P PA ADP . . . C 2 124.319 106.211 70.911 1 135.52 ? PA ADP 801 A 1 HETATM 6 O O1A ADP . . . C 2 125.799 106.48 70.838 1 144.42 ? O1A ADP 801 A 1 HETATM 7 O O2A ADP . . . C 2 123.48 106.942 71.927 1 123.39 ? O2A ADP 801 A 1 HETATM 8 O O3A ADP . . . C 2 123.692 106.446 69.452 1 131.53 ? O3A ADP 801 A 1 HETATM 9 O O5' ADP . . . C 2 124.124 104.635 71.137 1 135.5 ? O5' ADP 801 A 1 HETATM 10 C C5' ADP . . . C 2 124.873 104 72.164 1 136.26 ? C5' ADP 801 A 1 HETATM 11 C C4' ADP . . . C 2 124.244 102.672 72.541 1 126.05 ? C4' ADP 801 A 1 HETATM 12 O O4' ADP . . . C 2 124.708 102.328 73.843 1 129.14 ? O4' ADP 801 A 1 HETATM 13 C C3' ADP . . . C 2 122.738 102.792 72.603 1 127.09 ? C3' ADP 801 A 1 HETATM 14 O O3' ADP . . . C 2 122.159 101.722 71.857 1 128.19 ? O3' ADP 801 A 1 HETATM 15 C C2' ADP . . . C 2 122.364 102.646 74.059 1 129.27 ? C2' ADP 801 A 1 HETATM 16 O O2' ADP . . . C 2 121.395 101.608 74.198 1 141.51 ? O2' ADP 801 A 1 HETATM 17 C C1' ADP . . . C 2 123.638 102.259 74.78 1 128.51 ? C1' ADP 801 A 1 HETATM 18 N N9 ADP . . . C 2 123.89 103.24 75.856 1 126.25 ? N9 ADP 801 A 1 HETATM 19 C C8 ADP . . . C 2 124.165 104.54 75.668 1 128.8 ? C8 ADP 801 A 1 HETATM 20 N N7 ADP . . . C 2 124.345 105.179 76.849 1 128.69 ? N7 ADP 801 A 1 HETATM 21 C C5 ADP . . . C 2 124.178 104.271 77.823 1 128.43 ? C5 ADP 801 A 1 HETATM 22 C C6 ADP . . . C 2 124.229 104.276 79.3 1 131.12 ? C6 ADP 801 A 1 HETATM 23 N N6 ADP . . . C 2 124.498 105.411 79.984 1 129.89 ? N6 ADP 801 A 1 HETATM 24 N N1 ADP . . . C 2 123.995 103.115 79.941 1 136.68 ? N1 ADP 801 A 1 HETATM 25 C C2 ADP . . . C 2 123.725 101.983 79.27 1 137.22 ? C2 ADP 801 A 1 HETATM 26 N N3 ADP . . . C 2 123.666 101.905 77.93 1 133.99 ? N3 ADP 801 A 1 HETATM 27 C C4 ADP . . . C 2 123.877 102.996 77.164 1 130.01 ? C4 ADP 801 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #