data_5N2S # _model_server_result.job_id M_CxCS1KKS2QEBfdZ5pL-A _model_server_result.datetime_utc '2025-07-27 00:20:15' _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 5n2s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":2001}' # _entry.id 5N2S # _exptl.entry_id 5N2S _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 386.488 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-butyl-3-(3-oxidanylpropyl)-8-[(1~{R},5~{S})-3-tricyclo[3.3.1.0^{3,7}]nonanyl]-7~{H}-purine-2,6-dione _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 5N2S _cell.length_a 70.273 _cell.length_b 111.658 _cell.length_c 160.543 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5N2S _symmetry.cell_setting ? _symmetry.Int_Tables_number 21 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 disulf ? disulf1 A SG CYS 187 A CYS 1185 1_555 A SG CYS 276 A CYS 1274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 367 A CYS 1365 1_555 A SG CYS 370 A CYS 1368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C21 H30 N4 O3' _chem_comp.formula_weight 386.488 _chem_comp.id 8K8 _chem_comp.mon_nstd_flag . _chem_comp.name 1-butyl-3-(3-oxidanylpropyl)-8-[(1~{R},5~{S})-3-tricyclo[3.3.1.0^{3,7}]nonanyl]-7~{H}-purine-2,6-dione _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 C01 C02 8K8 sing 1 n n C02 C03 8K8 sing 2 n n C03 C04 8K8 sing 3 n n C04 N05 8K8 sing 4 n n O07 C06 8K8 doub 5 n n N05 C06 8K8 sing 6 n n N05 C27 8K8 sing 7 n n O28 C27 8K8 doub 8 n n C06 N08 8K8 sing 9 n n C27 C14 8K8 sing 10 n n N08 C09 8K8 sing 11 n n N08 C13 8K8 sing 12 n n C14 C13 8K8 doub 13 n y C14 N15 8K8 sing 14 n y C09 C10 8K8 sing 15 n n C13 N17 8K8 sing 16 n y C10 C11 8K8 sing 17 n n N15 C16 8K8 sing 18 n y C11 O12 8K8 sing 19 n n N17 C16 8K8 doub 20 n y C16 C18 8K8 sing 21 n n C19 C18 8K8 sing 22 n n C19 C20 8K8 sing 23 n n C18 C25 8K8 sing 24 n n C18 C22 8K8 sing 25 n n C25 C24 8K8 sing 26 n n C20 C26 8K8 sing 27 n n C20 C21 8K8 sing 28 n n C22 C21 8K8 sing 29 n n C22 C23 8K8 sing 30 n n C24 C26 8K8 sing 31 n n C24 C23 8K8 sing 32 n n C10 H1 8K8 sing 33 n n C21 H2 8K8 sing 34 n n C21 H3 8K8 sing 35 n n C22 H4 8K8 sing 36 n n C23 H5 8K8 sing 37 n n C23 H6 8K8 sing 38 n n C24 H7 8K8 sing 39 n n C25 H8 8K8 sing 40 n n C25 H9 8K8 sing 41 n n C26 H10 8K8 sing 42 n n C26 H11 8K8 sing 43 n n C01 H12 8K8 sing 44 n n C01 H13 8K8 sing 45 n n C01 H14 8K8 sing 46 n n C02 H15 8K8 sing 47 n n C02 H16 8K8 sing 48 n n C03 H17 8K8 sing 49 n n C03 H18 8K8 sing 50 n n C04 H19 8K8 sing 51 n n C04 H20 8K8 sing 52 n n C09 H21 8K8 sing 53 n n C11 H22 8K8 sing 54 n n C11 H23 8K8 sing 55 n n O12 H24 8K8 sing 56 n n N15 H25 8K8 sing 57 n n C19 H27 8K8 sing 58 n n C19 H28 8K8 sing 59 n n C20 H29 8K8 sing 60 n n C10 H30 8K8 sing 61 n n C09 H31 8K8 sing 62 n n # _atom_sites.entry_id 5N2S _atom_sites.fract_transf_matrix[1][1] 0.01423 _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] 0.008956 _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] 0.006229 _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 B 2 8K8 A 1 2001 2001 8K8 PSB . C 3 SO4 A 1 2002 2002 SO4 SO4 . D 3 SO4 A 1 2003 2003 SO4 SO4 . E 4 HOH A 1 2101 2 HOH HOH . E 4 HOH A 2 2102 1 HOH HOH . # 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 C C10 8K8 . . . B 2 101.763 131.548 46.329 1 88.69 ? C10 8K8 2001 A 1 HETATM 2 C C13 8K8 . . . B 2 103.945 129.204 46.199 1 88.81 ? C13 8K8 2001 A 1 HETATM 3 C C14 8K8 . . . B 2 105.016 128.427 45.721 1 89.52 ? C14 8K8 2001 A 1 HETATM 4 C C16 8K8 . . . B 2 105.697 129.465 47.675 1 81.92 ? C16 8K8 2001 A 1 HETATM 5 C C18 8K8 . . . B 2 106.603 129.91 48.91 1 75.3 ? C18 8K8 2001 A 1 HETATM 6 C C21 8K8 . . . B 2 107.636 128.586 50.875 1 74.14 ? C21 8K8 2001 A 1 HETATM 7 C C22 8K8 . . . B 2 106.338 129.255 50.339 1 70.2 ? C22 8K8 2001 A 1 HETATM 8 C C23 8K8 . . . B 2 106.094 130.464 51.193 1 81.21 ? C23 8K8 2001 A 1 HETATM 9 C C24 8K8 . . . B 2 107.297 131.451 50.75 1 75.9 ? C24 8K8 2001 A 1 HETATM 10 C C25 8K8 . . . B 2 106.837 131.512 49.285 1 66.59 ? C25 8K8 2001 A 1 HETATM 11 C C26 8K8 . . . B 2 108.71 130.812 50.796 1 80.76 ? C26 8K8 2001 A 1 HETATM 12 C C27 8K8 . . . B 2 104.924 127.597 44.451 1 79.02 ? C27 8K8 2001 A 1 HETATM 13 C C01 8K8 . . . B 2 105.381 126.105 39.062 1 96.21 ? C01 8K8 2001 A 1 HETATM 14 C C02 8K8 . . . B 2 104.125 126.367 39.949 1 87.54 ? C02 8K8 2001 A 1 HETATM 15 C C03 8K8 . . . B 2 104.458 127.119 41.275 1 89.35 ? C03 8K8 2001 A 1 HETATM 16 C C04 8K8 . . . B 2 103.437 126.848 42.433 1 97.74 ? C04 8K8 2001 A 1 HETATM 17 N N05 8K8 . . . B 2 103.639 127.685 43.765 1 85.27 ? N05 8K8 2001 A 1 HETATM 18 C C06 8K8 . . . B 2 102.51 128.472 44.224 1 79.5 ? C06 8K8 2001 A 1 HETATM 19 O O07 8K8 . . . B 2 101.481 128.503 43.625 1 80.65 ? O07 8K8 2001 A 1 HETATM 20 N N08 8K8 . . . B 2 102.707 129.239 45.474 1 85.92 ? N08 8K8 2001 A 1 HETATM 21 C C09 8K8 . . . B 2 101.474 130.06 45.915 1 85.37 ? C09 8K8 2001 A 1 HETATM 22 C C11 8K8 . . . B 2 100.507 132.414 46.705 1 93.66 ? C11 8K8 2001 A 1 HETATM 23 O O12 8K8 . . . B 2 100.095 132.086 48.01 1 95.57 ? O12 8K8 2001 A 1 HETATM 24 N N15 8K8 . . . B 2 106.072 128.598 46.643 1 85.9 ? N15 8K8 2001 A 1 HETATM 25 N N17 8K8 . . . B 2 104.385 129.838 47.409 1 84.44 ? N17 8K8 2001 A 1 HETATM 26 C C19 8K8 . . . B 2 108.165 129.727 48.764 1 73.42 ? C19 8K8 2001 A 1 HETATM 27 C C20 8K8 . . . B 2 108.683 129.424 50.215 1 74.21 ? C20 8K8 2001 A 1 HETATM 28 O O28 8K8 . . . B 2 105.794 126.936 44.026 1 68.73 ? O28 8K8 2001 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 28 #