data_1AON # _model_server_result.job_id wAdSapdAT2_mSad8B2qV9A _model_server_result.datetime_utc '2024-10-20 01:32:04' _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 1aon # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"CA","auth_seq_id":1}' # _entry.id 1AON # _exptl.entry_id 1AON _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 7 _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 1AON _cell.length_a 255.26 _cell.length_b 265.25 _cell.length_c 184.4 _cell.Z_PDB 56 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1AON _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 21-meric _pdbx_struct_assembly.oligomeric_count 21 _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,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA _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 ? 4 W N N ? 4 Y N N ? 4 AA N N ? 4 CA N N ? 4 EA N N ? 4 GA N N ? 4 IA 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 W O2A ADP . A ADP 1 1_555 V MG MG . A MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? metalc ? metalc2 W O1B ADP . A ADP 1 1_555 V MG MG . A MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc3 W O3B ADP . A ADP 1 1_555 V MG MG . A MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.109 ? metalc ? metalc4 A OD1 ASP 86 A ASP 87 1_555 V MG MG . A MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc5 Y O1B ADP . B ADP 1 1_555 X MG MG . B MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? metalc ? metalc6 Y O2A ADP . B ADP 1 1_555 X MG MG . B MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc7 B OD1 ASP 86 B ASP 87 1_555 X MG MG . B MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc8 B OD2 ASP 86 B ASP 87 1_555 X MG MG . B MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.095 ? metalc ? metalc9 AA O1B ADP . C ADP 1 1_555 Z MG MG . C MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? metalc ? metalc10 AA O2A ADP . C ADP 1 1_555 Z MG MG . C MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? metalc ? metalc11 AA O3B ADP . C ADP 1 1_555 Z MG MG . C MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.096 ? metalc ? metalc12 C OD1 ASP 86 C ASP 87 1_555 Z MG MG . C MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc13 CA O2A ADP . D ADP 1 1_555 BA MG MG . D MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc14 CA O1B ADP . D ADP 1 1_555 BA MG MG . D MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc15 D OD1 ASP 86 D ASP 87 1_555 BA MG MG . D MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc16 EA O1B ADP . E ADP 1 1_555 DA MG MG . E MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc17 EA O2A ADP . E ADP 1 1_555 DA MG MG . E MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc18 EA O3B ADP . E ADP 1 1_555 DA MG MG . E MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.958 ? metalc ? metalc19 E OD1 ASP 86 E ASP 87 1_555 DA MG MG . E MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc20 GA O2A ADP . F ADP 1 1_555 FA MG MG . F MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc21 GA O1B ADP . F ADP 1 1_555 FA MG MG . F MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc22 GA O3B ADP . F ADP 1 1_555 FA MG MG . F MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.886 ? metalc ? metalc23 F OD1 ASP 86 F ASP 87 1_555 FA MG MG . F MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc24 IA O2A ADP . G ADP 1 1_555 HA MG MG . G MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc25 IA O1B ADP . G ADP 1 1_555 HA MG MG . G MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.671 ? metalc ? metalc26 IA O3B ADP . G ADP 1 1_555 HA MG MG . G MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.923 ? metalc ? metalc27 G OD1 ASP 86 G ASP 87 1_555 HA MG MG . G MG 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? # _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 1AON _atom_sites.fract_transf_matrix[1][1] 0.003918 _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] 0.00377 _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] 0.005423 _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 V 3 MG A 1 550 550 MG MG . W 4 ADP A 1 1 1 ADP ADP . X 3 MG B 1 550 550 MG MG . Y 4 ADP B 1 1 1 ADP ADP . Z 3 MG C 1 550 550 MG MG . AA 4 ADP C 1 1 1 ADP ADP . BA 3 MG D 1 550 550 MG MG . CA 4 ADP D 1 1 1 ADP ADP . DA 3 MG E 1 550 550 MG MG . EA 4 ADP E 1 1 1 ADP ADP . FA 3 MG F 1 550 550 MG MG . GA 4 ADP F 1 1 1 ADP ADP . HA 3 MG G 1 550 550 MG MG . IA 4 ADP G 1 1 1 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 . . . CA 4 118.005 -78.831 -18.412 1 23.37 ? PB ADP 1 D 1 HETATM 2 O O1B ADP . . . CA 4 118.824 -79.786 -19.19 1 11.57 ? O1B ADP 1 D 1 HETATM 3 O O2B ADP . . . CA 4 118.703 -77.708 -17.784 1 12.23 ? O2B ADP 1 D 1 HETATM 4 O O3B ADP . . . CA 4 116.627 -78.564 -18.941 1 24.8 ? O3B ADP 1 D 1 HETATM 5 P PA ADP . . . CA 4 117.701 -81.251 -17.158 1 25.12 ? PA ADP 1 D 1 HETATM 6 O O1A ADP . . . CA 4 116.969 -81.785 -15.976 1 20.36 ? O1A ADP 1 D 1 HETATM 7 O O2A ADP . . . CA 4 117.262 -81.594 -18.518 1 21.18 ? O2A ADP 1 D 1 HETATM 8 O O3A ADP . . . CA 4 117.771 -79.667 -17.088 1 23.61 ? O3A ADP 1 D 1 HETATM 9 O O5' ADP . . . CA 4 119.208 -81.708 -16.993 1 26.87 ? O5' ADP 1 D 1 HETATM 10 C C5' ADP . . . CA 4 119.591 -82.497 -15.878 1 38.98 ? C5' ADP 1 D 1 HETATM 11 C C4' ADP . . . CA 4 121.089 -82.481 -15.709 1 33.05 ? C4' ADP 1 D 1 HETATM 12 O O4' ADP . . . CA 4 121.424 -83.368 -14.615 1 36.89 ? O4' ADP 1 D 1 HETATM 13 C C3' ADP . . . CA 4 121.877 -83.021 -16.893 1 36.57 ? C3' ADP 1 D 1 HETATM 14 O O3' ADP . . . CA 4 122.154 -81.985 -17.83 1 48.08 ? O3' ADP 1 D 1 HETATM 15 C C2' ADP . . . CA 4 123.151 -83.533 -16.239 1 35.36 ? C2' ADP 1 D 1 HETATM 16 O O2' ADP . . . CA 4 124.081 -82.494 -15.989 1 34.08 ? O2' ADP 1 D 1 HETATM 17 C C1' ADP . . . CA 4 122.605 -84.084 -14.923 1 33.77 ? C1' ADP 1 D 1 HETATM 18 N N9 ADP . . . CA 4 122.266 -85.499 -14.978 1 32.91 ? N9 ADP 1 D 1 HETATM 19 C C8 ADP . . . CA 4 121.568 -86.178 -15.954 1 32.91 ? C8 ADP 1 D 1 HETATM 20 N N7 ADP . . . CA 4 121.446 -87.464 -15.716 1 33.55 ? N7 ADP 1 D 1 HETATM 21 C C5 ADP . . . CA 4 122.108 -87.644 -14.503 1 34.11 ? C5 ADP 1 D 1 HETATM 22 C C6 ADP . . . CA 4 122.337 -88.782 -13.709 1 34.27 ? C6 ADP 1 D 1 HETATM 23 N N6 ADP . . . CA 4 121.902 -90.011 -14.032 1 36.56 ? N6 ADP 1 D 1 HETATM 24 N N1 ADP . . . CA 4 123.032 -88.612 -12.554 1 30.6 ? N1 ADP 1 D 1 HETATM 25 C C2 ADP . . . CA 4 123.448 -87.374 -12.227 1 25.88 ? C2 ADP 1 D 1 HETATM 26 N N3 ADP . . . CA 4 123.29 -86.232 -12.888 1 22.92 ? N3 ADP 1 D 1 HETATM 27 C C4 ADP . . . CA 4 122.607 -86.439 -14.034 1 31.58 ? C4 ADP 1 D 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 82 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #