data_5AP3 # _model_server_result.job_id bd1TNtavDZmY9basiFs2jA _model_server_result.datetime_utc '2024-11-27 19:34:53' _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 5ap3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1799}' # _entry.id 5AP3 # _exptl.entry_id 5AP3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 452.549 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 9-CYCLOPENTYL-2-[[2-METHOXY-4-[(1-METHYLPIPERIDIN-4-YL)OXY]-PHENYL]AMINO]-7-METHYL-7,9-DIHYDRO-8H-PURIN-8-ONE _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 5AP3 _cell.length_a 70.73 _cell.length_b 111.25 _cell.length_c 112.01 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5AP3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 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 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 _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 3 _struct_asym.id F _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 covale ? covale1 A C GLY 190 A GLY 685 1_555 A N TPO 191 A TPO 686 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale2 A C TPO 191 A TPO 686 1_555 A N VAL 192 A VAL 687 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? # _chem_comp.formula 'C24 H32 N6 O3' _chem_comp.formula_weight 452.549 _chem_comp.id AU5 _chem_comp.mon_nstd_flag . _chem_comp.name 9-CYCLOPENTYL-2-[[2-METHOXY-4-[(1-METHYLPIPERIDIN-4-YL)OXY]-PHENYL]AMINO]-7-METHYL-7,9-DIHYDRO-8H-PURIN-8-ONE _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 O C4 AU5 doub 120 n n C4 N2 AU5 sing 121 n n C4 N3 AU5 sing 122 n n N2 C10 AU5 sing 123 n n N2 C2 AU5 sing 124 n n C2 C3 AU5 sing 125 n y C2 C1 AU5 doub 126 n y C3 N AU5 doub 127 n y N C AU5 sing 128 n y N3 C5 AU5 sing 129 n n N3 C1 AU5 sing 130 n n C5 C9 AU5 sing 131 n n C5 C6 AU5 sing 132 n n C9 C8 AU5 sing 133 n n C8 C7 AU5 sing 134 n n C7 C6 AU5 sing 135 n n C1 N1 AU5 sing 136 n y N1 C AU5 doub 137 n y C N4 AU5 sing 138 n n N4 C11 AU5 sing 139 n n C11 C16 AU5 sing 140 n y C11 C12 AU5 doub 141 n y C16 O1 AU5 sing 142 n n C16 C15 AU5 doub 143 n y O1 C17 AU5 sing 144 n n C15 C14 AU5 sing 145 n y C14 C13 AU5 doub 146 n y C14 O2 AU5 sing 147 n n C13 C12 AU5 sing 148 n y O2 C18 AU5 sing 149 n n C18 C22 AU5 sing 150 n n C18 C19 AU5 sing 151 n n C22 C21 AU5 sing 152 n n C21 N5 AU5 sing 153 n n N5 C23 AU5 sing 154 n n N5 C20 AU5 sing 155 n n C20 C19 AU5 sing 156 n n C10 H101 AU5 sing 157 n n C10 H102 AU5 sing 158 n n C10 H103 AU5 sing 159 n n C3 H3 AU5 sing 160 n n C5 H5 AU5 sing 161 n n C9 H91C AU5 sing 162 n n C9 H92C AU5 sing 163 n n C6 H61C AU5 sing 164 n n C6 H62C AU5 sing 165 n n C8 H81C AU5 sing 166 n n C8 H82C AU5 sing 167 n n C7 H71C AU5 sing 168 n n C7 H72C AU5 sing 169 n n N4 H4 AU5 sing 170 n n C12 H12 AU5 sing 171 n n C15 H15 AU5 sing 172 n n C17 H171 AU5 sing 173 n n C17 H172 AU5 sing 174 n n C17 H173 AU5 sing 175 n n C13 H13 AU5 sing 176 n n C18 H18 AU5 sing 177 n n C22 H221 AU5 sing 178 n n C22 H222 AU5 sing 179 n n C19 H191 AU5 sing 180 n n C19 H192 AU5 sing 181 n n C21 H211 AU5 sing 182 n n C21 H212 AU5 sing 183 n n C23 H231 AU5 sing 184 n n C23 H232 AU5 sing 185 n n C23 H233 AU5 sing 186 n n C20 H201 AU5 sing 187 n n C20 H202 AU5 sing 188 n n # _atom_sites.entry_id 5AP3 _atom_sites.fract_transf_matrix[1][1] 0.014138 _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] 0.008989 _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] 0.008928 _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 7PE A 1 1795 1795 7PE 7PE . C 2 7PE A 1 1796 1796 7PE 7PE . D 2 7PE A 1 1797 1797 7PE 7PE . E 2 7PE A 1 1798 1798 7PE 7PE . F 3 AU5 A 1 1799 1799 AU5 AU5 . G 4 DMS A 1 1800 1800 DMS DMS . H 5 EDO A 1 1801 1801 EDO EDO . I 5 EDO A 1 1802 1802 EDO EDO . J 5 EDO A 1 1803 1803 EDO EDO . K 6 HOH A 1 2001 2001 HOH HOH . K 6 HOH A 2 2002 2002 HOH HOH . K 6 HOH A 3 2003 2003 HOH HOH . K 6 HOH A 4 2004 2004 HOH HOH . K 6 HOH A 5 2005 2005 HOH HOH . K 6 HOH A 6 2006 2006 HOH HOH . K 6 HOH A 7 2007 2007 HOH HOH . K 6 HOH A 8 2008 2008 HOH HOH . K 6 HOH A 9 2009 2009 HOH HOH . K 6 HOH A 10 2010 2010 HOH HOH . K 6 HOH A 11 2011 2011 HOH HOH . K 6 HOH A 12 2012 2012 HOH HOH . K 6 HOH A 13 2013 2013 HOH HOH . K 6 HOH A 14 2014 2014 HOH HOH . K 6 HOH A 15 2015 2015 HOH HOH . K 6 HOH A 16 2016 2016 HOH HOH . K 6 HOH A 17 2017 2017 HOH HOH . K 6 HOH A 18 2018 2018 HOH HOH . K 6 HOH A 19 2019 2019 HOH HOH . K 6 HOH A 20 2020 2020 HOH HOH . K 6 HOH A 21 2021 2021 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 O O AU5 . . . F 3 -3.065 39.522 129.351 1 72.03 ? O AU5 1799 A 1 HETATM 2 C C4 AU5 . . . F 3 -2.308 40.466 129.347 1 68.52 ? C4 AU5 1799 A 1 HETATM 3 N N2 AU5 . . . F 3 -1.911 41.187 130.489 1 67.51 ? N2 AU5 1799 A 1 HETATM 4 C C10 AU5 . . . F 3 -2.362 40.879 131.832 1 68.56 ? C10 AU5 1799 A 1 HETATM 5 C C2 AU5 . . . F 3 -1.048 42.213 130.095 1 65.26 ? C2 AU5 1799 A 1 HETATM 6 C C3 AU5 . . . F 3 -0.368 43.214 130.756 1 62.38 ? C3 AU5 1799 A 1 HETATM 7 N N AU5 . . . F 3 0.39 44.094 130.084 1 62.78 ? N AU5 1799 A 1 HETATM 8 N N3 AU5 . . . F 3 -1.675 41.06 128.225 1 66.08 ? N3 AU5 1799 A 1 HETATM 9 C C5 AU5 . . . F 3 -1.805 40.607 126.837 1 65.24 ? C5 AU5 1799 A 1 HETATM 10 C C9 AU5 . . . F 3 -0.442 40.27 126.21 1 65.82 ? C9 AU5 1799 A 1 HETATM 11 C C8 AU5 . . . F 3 -0.547 40.625 124.728 1 65.73 ? C8 AU5 1799 A 1 HETATM 12 C C7 AU5 . . . F 3 -1.816 41.454 124.544 1 65.82 ? C7 AU5 1799 A 1 HETATM 13 C C6 AU5 . . . F 3 -2.378 41.705 125.937 1 65.07 ? C6 AU5 1799 A 1 HETATM 14 C C1 AU5 . . . F 3 -0.905 42.137 128.676 1 66.28 ? C1 AU5 1799 A 1 HETATM 15 N N1 AU5 . . . F 3 -0.165 42.983 127.93 1 66.56 ? N1 AU5 1799 A 1 HETATM 16 C C AU5 . . . F 3 0.447 43.948 128.705 1 65.37 ? C AU5 1799 A 1 HETATM 17 N N4 AU5 . . . F 3 1.194 44.938 128.089 1 65.21 ? N4 AU5 1799 A 1 HETATM 18 C C11 AU5 . . . F 3 1.434 45.094 126.711 1 66.97 ? C11 AU5 1799 A 1 HETATM 19 C C16 AU5 . . . F 3 1.544 46.334 126.093 1 69.11 ? C16 AU5 1799 A 1 HETATM 20 O O1 AU5 . . . F 3 1.437 47.475 126.838 1 70.69 ? O1 AU5 1799 A 1 HETATM 21 C C17 AU5 . . . F 3 0.428 48.344 126.379 1 71.48 ? C17 AU5 1799 A 1 HETATM 22 C C15 AU5 . . . F 3 1.775 46.448 124.724 1 71.46 ? C15 AU5 1799 A 1 HETATM 23 C C14 AU5 . . . F 3 1.901 45.292 123.98 1 75.62 ? C14 AU5 1799 A 1 HETATM 24 C C13 AU5 . . . F 3 1.791 44.034 124.571 1 72.08 ? C13 AU5 1799 A 1 HETATM 25 C C12 AU5 . . . F 3 1.56 43.941 125.929 1 69.24 ? C12 AU5 1799 A 1 HETATM 26 O O2 AU5 . . . F 3 2.16 45.321 122.64 1 83.21 ? O2 AU5 1799 A 1 HETATM 27 C C18 AU5 . . . F 3 1.031 45.243 121.8 1 89.92 ? C18 AU5 1799 A 1 HETATM 28 C C22 AU5 . . . F 3 1.395 44.468 120.529 1 92.64 ? C22 AU5 1799 A 1 HETATM 29 C C21 AU5 . . . F 3 0.178 44.475 119.59 1 94.33 ? C21 AU5 1799 A 1 HETATM 30 N N5 AU5 . . . F 3 -0.321 45.834 119.244 1 94.68 ? N5 AU5 1799 A 1 HETATM 31 C C23 AU5 . . . F 3 -1.551 45.772 118.416 1 94.32 ? C23 AU5 1799 A 1 HETATM 32 C C20 AU5 . . . F 3 -0.522 46.65 120.469 1 93.64 ? C20 AU5 1799 A 1 HETATM 33 C C19 AU5 . . . F 3 0.684 46.684 121.423 1 92.03 ? C19 AU5 1799 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 33 #