data_8F8S # _model_server_result.job_id YLIH_BxVtoiHAuRMJM5rIQ _model_server_result.datetime_utc '2024-11-17 08:22:29' _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 8f8s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":401}' # _entry.id 8F8S # _exptl.entry_id 8F8S _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 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 8F8S _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8F8S _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 heptameric _pdbx_struct_assembly.oligomeric_count 7 _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 _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 ? 2 H N N ? 2 J N N ? 2 L N N ? 2 N N N ? 2 P N N ? 2 R N N ? 2 T 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 covale ? covale1 A C GLU 74 A GLU 72 1_555 A N HIC 75 A HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C HIC 75 A HIC 73 1_555 A N GLY 76 A GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 B C GLU 74 B GLU 72 1_555 B N HIC 75 B HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 B C HIC 75 B HIC 73 1_555 B N GLY 76 B GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale5 C C GLU 74 C GLU 72 1_555 C N HIC 75 C HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 C C HIC 75 C HIC 73 1_555 C N GLY 76 C GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale7 D C GLU 74 D GLU 72 1_555 D N HIC 75 D HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 D C HIC 75 D HIC 73 1_555 D N GLY 76 D GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale9 E C GLU 74 E GLU 72 1_555 E N HIC 75 E HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale10 E C HIC 75 E HIC 73 1_555 E N GLY 76 E GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale11 F C GLU 74 F GLU 72 1_555 F N HIC 75 F HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale12 F C HIC 75 F HIC 73 1_555 F N GLY 76 F GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale13 G C GLU 74 G GLU 72 1_555 G N HIC 75 G HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale14 G C HIC 75 G HIC 73 1_555 G N GLY 76 G GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? metalc ? metalc1 H O2B ADP . A ADP 401 1_555 I MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc2 J O2B ADP . B ADP 401 1_555 K MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc3 L O3B ADP . C ADP 401 1_555 M MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc4 N O3B ADP . D ADP 401 1_555 O MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc5 P O3B ADP . E ADP 401 1_555 Q MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc6 R O3B ADP . F ADP 401 1_555 S MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc7 T O3B ADP . G ADP 401 1_555 U MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? # _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 ? # _atom_sites.entry_id 8F8S _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 H 2 ADP A 1 401 401 ADP ADP . I 3 MG A 1 402 402 MG MG . J 2 ADP B 1 401 401 ADP ADP . K 3 MG B 1 402 402 MG MG . L 2 ADP C 1 401 401 ADP ADP . M 3 MG C 1 402 402 MG MG . N 2 ADP D 1 401 401 ADP ADP . O 3 MG D 1 402 402 MG MG . P 2 ADP E 1 401 401 ADP ADP . Q 3 MG E 1 402 402 MG MG . R 2 ADP F 1 401 401 ADP ADP . S 3 MG F 1 402 402 MG MG . T 2 ADP G 1 401 401 ADP ADP . U 3 MG G 1 402 402 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 . . . L 2 221.133 199.832 231.216 1 30.81 ? PB ADP 401 C 1 HETATM 2 O O1B ADP . . . L 2 220.114 199.393 230.199 1 52.83 ? O1B ADP 401 C 1 HETATM 3 O O2B ADP . . . L 2 221.264 201.323 231.34 1 51.23 ? O2B ADP 401 C 1 HETATM 4 O O3B ADP . . . L 2 221.04 199.126 232.541 1 43.4 ? O3B ADP 401 C 1 HETATM 5 P PA ADP . . . L 2 223.944 199.773 231.228 1 41.55 ? PA ADP 401 C 1 HETATM 6 O O1A ADP . . . L 2 224.871 198.591 231.102 1 50.61 ? O1A ADP 401 C 1 HETATM 7 O O2A ADP . . . L 2 223.661 200.341 232.592 1 48.92 ? O2A ADP 401 C 1 HETATM 8 O O3A ADP . . . L 2 222.534 199.347 230.589 1 37.24 ? O3A ADP 401 C 1 HETATM 9 O O5' ADP . . . L 2 224.505 200.935 230.266 1 44.16 ? O5' ADP 401 C 1 HETATM 10 C C5' ADP . . . L 2 223.722 201.494 229.215 1 43.91 ? C5' ADP 401 C 1 HETATM 11 C C4' ADP . . . L 2 224.366 202.785 228.718 1 41.41 ? C4' ADP 401 C 1 HETATM 12 O O4' ADP . . . L 2 225.743 202.835 229.076 1 41.02 ? O4' ADP 401 C 1 HETATM 13 C C3' ADP . . . L 2 224.296 202.914 227.207 1 43.61 ? C3' ADP 401 C 1 HETATM 14 O O3' ADP . . . L 2 223.429 203.994 226.857 1 52.69 ? O3' ADP 401 C 1 HETATM 15 C C2' ADP . . . L 2 225.703 203.232 226.748 1 42.31 ? C2' ADP 401 C 1 HETATM 16 O O2' ADP . . . L 2 225.705 204.436 225.981 1 51.61 ? O2' ADP 401 C 1 HETATM 17 C C1' ADP . . . L 2 226.498 203.43 228.022 1 37.64 ? C1' ADP 401 C 1 HETATM 18 N N9 ADP . . . L 2 227.827 202.784 227.935 1 36.66 ? N9 ADP 401 C 1 HETATM 19 C C8 ADP . . . L 2 228.053 201.464 227.88 1 41.83 ? C8 ADP 401 C 1 HETATM 20 N N7 ADP . . . L 2 229.38 201.201 227.818 1 42.84 ? N7 ADP 401 C 1 HETATM 21 C C5 ADP . . . L 2 230.025 202.378 227.833 1 37.24 ? C5 ADP 401 C 1 HETATM 22 C C6 ADP . . . L 2 231.434 202.822 227.788 1 38.13 ? C6 ADP 401 C 1 HETATM 23 N N6 ADP . . . L 2 232.448 201.929 227.712 1 42.32 ? N6 ADP 401 C 1 HETATM 24 N N1 ADP . . . L 2 231.673 204.147 227.823 1 42.36 ? N1 ADP 401 C 1 HETATM 25 C C2 ADP . . . L 2 230.677 205.044 227.893 1 46.56 ? C2 ADP 401 C 1 HETATM 26 N N3 ADP . . . L 2 229.379 204.712 227.937 1 41.04 ? N3 ADP 401 C 1 HETATM 27 C C4 ADP . . . L 2 228.996 203.418 227.906 1 36.77 ? C4 ADP 401 C 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 67 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 27 #