data_8XVG # _model_server_result.job_id ckY9pJVtA4GjaMtQmuJGWg _model_server_result.datetime_utc '2024-11-14 10:26:50' _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 8xvg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":501}' # _entry.id 8XVG # _exptl.entry_id 8XVG _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 11 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 9 _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 8XVG _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8XVG _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 tetradecameric _pdbx_struct_assembly.oligomeric_count 14 _pdbx_struct_assembly.details author_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,L,M,N,O,P,Q,R,S,T,U,V,W,X _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 11 P N N ? 11 Q N N ? 11 R N N ? 11 S N N ? 11 T N N ? 11 U N N ? 11 V N N ? 11 W N N ? 11 X N N # _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 8XVG _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 O 10 IHP L 1 3901 3901 IHP IHP . P 11 ADP A 1 501 501 ADP ADP . Q 11 ADP B 1 501 501 ADP ADP . R 11 ADP C 1 501 501 ADP ADP . S 11 ADP D 1 501 501 ADP ADP . T 11 ADP E 1 501 501 ADP ADP . U 11 ADP F 1 501 501 ADP ADP . V 11 ADP I 1 501 501 ADP ADP . W 11 ADP J 1 502 502 ADP ADP . X 11 ADP K 1 401 401 ADP ADP . # 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 . . . P 11 272.534 143.546 170.824 1 80.41 ? PB ADP 501 A 1 HETATM 2 O O1B ADP . . . P 11 273.07 143.323 172.218 1 80.41 ? O1B ADP 501 A 1 HETATM 3 O O2B ADP . . . P 11 271.029 143.496 170.705 1 80.41 ? O2B ADP 501 A 1 HETATM 4 O O3B ADP . . . P 11 273.19 144.682 170.074 1 80.41 ? O3B ADP 501 A 1 HETATM 5 P PA ADP . . . P 11 274.061 141.234 170.777 1 80.41 ? PA ADP 501 A 1 HETATM 6 O O1A ADP . . . P 11 273.365 140.631 171.972 1 80.41 ? O1A ADP 501 A 1 HETATM 7 O O2A ADP . . . P 11 275.376 141.94 170.986 1 80.41 ? O2A ADP 501 A 1 HETATM 8 O O3A ADP . . . P 11 273.046 142.243 170.043 1 80.41 ? O3A ADP 501 A 1 HETATM 9 O O5' ADP . . . P 11 274.221 140.111 169.641 1 80.41 ? O5' ADP 501 A 1 HETATM 10 C C5' ADP . . . P 11 274.264 140.492 168.269 1 80.41 ? C5' ADP 501 A 1 HETATM 11 C C4' ADP . . . P 11 275.021 139.399 167.542 1 80.41 ? C4' ADP 501 A 1 HETATM 12 O O4' ADP . . . P 11 275.695 139.922 166.403 1 80.41 ? O4' ADP 501 A 1 HETATM 13 C C3' ADP . . . P 11 276.057 138.823 168.487 1 80.41 ? C3' ADP 501 A 1 HETATM 14 O O3' ADP . . . P 11 275.783 137.439 168.715 1 80.41 ? O3' ADP 501 A 1 HETATM 15 C C2' ADP . . . P 11 277.386 138.966 167.79 1 80.41 ? C2' ADP 501 A 1 HETATM 16 O O2' ADP . . . P 11 277.929 137.658 167.625 1 80.41 ? O2' ADP 501 A 1 HETATM 17 C C1' ADP . . . P 11 277.076 139.573 166.433 1 80.41 ? C1' ADP 501 A 1 HETATM 18 N N9 ADP . . . P 11 277.833 140.827 166.248 1 80.41 ? N9 ADP 501 A 1 HETATM 19 C C8 ADP . . . P 11 277.443 142.029 166.705 1 80.41 ? C8 ADP 501 A 1 HETATM 20 N N7 ADP . . . P 11 278.336 142.989 166.371 1 80.41 ? N7 ADP 501 A 1 HETATM 21 C C5 ADP . . . P 11 279.323 142.394 165.679 1 80.41 ? C5 ADP 501 A 1 HETATM 22 C C6 ADP . . . P 11 280.577 142.829 165.031 1 80.41 ? C6 ADP 501 A 1 HETATM 23 N N6 ADP . . . P 11 280.964 144.126 165.059 1 80.41 ? N6 ADP 501 A 1 HETATM 24 N N1 ADP . . . P 11 281.313 141.884 164.407 1 80.41 ? N1 ADP 501 A 1 HETATM 25 C C2 ADP . . . P 11 280.95 140.591 164.387 1 80.41 ? C2 ADP 501 A 1 HETATM 26 N N3 ADP . . . P 11 279.82 140.124 164.947 1 80.41 ? N3 ADP 501 A 1 HETATM 27 C C4 ADP . . . P 11 278.986 140.965 165.599 1 80.41 ? C4 ADP 501 A 1 # _model_server_stats.io_time_ms 45 _model_server_stats.parse_time_ms 35 _model_server_stats.create_model_time_ms 450 _model_server_stats.query_time_ms 356 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 27 #