data_7DMY # _model_server_result.job_id ryw400F_D8LSBzZElTITvA _model_server_result.datetime_utc '2024-12-23 05:56:05' _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 7dmy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":3001}' # _entry.id 7DMY # _exptl.entry_id 7DMY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 439.551 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'tert-butyl 3-methyl-2-[[(3R,5R)-1-methyl-5-phenyl-piperidin-3-yl]amino]-4-oxidanylidene-5,7-dihydropyrrolo[3,4-d]pyrimidine-6-carboxylate' _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 95.35 _cell.angle_gamma 90 _cell.entry_id 7DMY _cell.length_a 75.011 _cell.length_b 44.931 _cell.length_c 40.838 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DMY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 # _chem_comp.formula 'C24 H33 N5 O3' _chem_comp.formula_weight 439.551 _chem_comp.id HAF _chem_comp.mon_nstd_flag . _chem_comp.name 'tert-butyl 3-methyl-2-[[(3R,5R)-1-methyl-5-phenyl-piperidin-3-yl]amino]-4-oxidanylidene-5,7-dihydropyrrolo[3,4-d]pyrimidine-6-carboxylate' _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 C30 C29 HAF doub 129 n y C30 C31 HAF sing 130 n y C29 C28 HAF sing 131 n y C31 C32 HAF doub 132 n y C28 C27 HAF doub 133 n y C32 C27 HAF sing 134 n y C27 C4 HAF sing 135 n n C3 C4 HAF sing 136 n n C3 N2 HAF sing 137 n n C4 C5 HAF sing 138 n n C5 C6 HAF sing 139 n n C1 N2 HAF sing 140 n n N2 C7 HAF sing 141 n n C7 C6 HAF sing 142 n n C6 N8 HAF sing 143 n n N8 C9 HAF sing 144 n n C9 N10 HAF doub 145 n n C9 N18 HAF sing 146 n n N10 C11 HAF sing 147 n n C19 N18 HAF sing 148 n n N18 C16 HAF sing 149 n n C11 C12 HAF sing 150 n n C11 C15 HAF doub 151 n n C16 C15 HAF sing 152 n n C16 O17 HAF doub 153 n n C12 N13 HAF sing 154 n n C15 C14 HAF sing 155 n n N13 C14 HAF sing 156 n n N13 C20 HAF sing 157 n n O22 C20 HAF sing 158 n n O22 C23 HAF sing 159 n n C25 C23 HAF sing 160 n n C20 O21 HAF doub 161 n n C23 C26 HAF sing 162 n n C23 C24 HAF sing 163 n n C24 H243 HAF sing 164 n n C24 H241 HAF sing 165 n n C24 H242 HAF sing 166 n n C26 H262 HAF sing 167 n n C26 H263 HAF sing 168 n n C26 H261 HAF sing 169 n n C28 H281 HAF sing 170 n n C1 H012 HAF sing 171 n n C1 H011 HAF sing 172 n n C1 H013 HAF sing 173 n n C3 H032 HAF sing 174 n n C3 H031 HAF sing 175 n n C4 H041 HAF sing 176 n n C5 H052 HAF sing 177 n n C5 H051 HAF sing 178 n n C6 H061 HAF sing 179 n n C7 H071 HAF sing 180 n n C7 H072 HAF sing 181 n n C12 H122 HAF sing 182 n n C12 H121 HAF sing 183 n n C14 H141 HAF sing 184 n n C14 H142 HAF sing 185 n n C19 H192 HAF sing 186 n n C19 H193 HAF sing 187 n n C19 H191 HAF sing 188 n n C25 H253 HAF sing 189 n n C25 H252 HAF sing 190 n n C25 H251 HAF sing 191 n n C29 H291 HAF sing 192 n n C30 H301 HAF sing 193 n n C31 H311 HAF sing 194 n n C32 H321 HAF sing 195 n n N8 H081 HAF sing 196 n n # _atom_sites.entry_id 7DMY _atom_sites.fract_transf_matrix[1][1] 0.013331 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001248 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022256 _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] 0.024594 _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 HAF A 1 3001 1 HAF LIG . C 3 HOH A 1 3101 27 HOH HOH . C 3 HOH A 2 3102 18 HOH HOH . C 3 HOH A 3 3103 34 HOH HOH . C 3 HOH A 4 3104 19 HOH HOH . C 3 HOH A 5 3105 9 HOH HOH . C 3 HOH A 6 3106 23 HOH HOH . C 3 HOH A 7 3107 10 HOH HOH . C 3 HOH A 8 3108 24 HOH HOH . C 3 HOH A 9 3109 38 HOH HOH . C 3 HOH A 10 3110 25 HOH HOH . C 3 HOH A 11 3111 30 HOH HOH . C 3 HOH A 12 3112 31 HOH HOH . C 3 HOH A 13 3113 15 HOH HOH . C 3 HOH A 14 3114 17 HOH HOH . C 3 HOH A 15 3115 29 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 C15 HAF . . . B 2 -31.667 15.43 11.454 1 36.46 ? C15 HAF 3001 A 1 HETATM 2 C C20 HAF . . . B 2 -34.918 16.282 12.846 1 32.7 ? C20 HAF 3001 A 1 HETATM 3 C C24 HAF . . . B 2 -36.551 14.38 14.346 1 28.78 ? C24 HAF 3001 A 1 HETATM 4 C C26 HAF . . . B 2 -37.6 16.574 13.649 1 20.74 ? C26 HAF 3001 A 1 HETATM 5 C C28 HAF . . . B 2 -30.5 17.353 2.803 1 45.92 ? C28 HAF 3001 A 1 HETATM 6 C C1 HAF . . . B 2 -27.407 19.697 5.996 1 40.73 ? C1 HAF 3001 A 1 HETATM 7 C C3 HAF . . . B 2 -29.062 18.751 4.86 1 39.09 ? C3 HAF 3001 A 1 HETATM 8 C C4 HAF . . . B 2 -30.533 18.288 5.124 1 39.02 ? C4 HAF 3001 A 1 HETATM 9 C C5 HAF . . . B 2 -30.508 17.132 5.94 1 38.92 ? C5 HAF 3001 A 1 HETATM 10 C C6 HAF . . . B 2 -29.857 17.463 7.199 1 36.46 ? C6 HAF 3001 A 1 HETATM 11 C C7 HAF . . . B 2 -28.612 18.39 7.193 1 38.88 ? C7 HAF 3001 A 1 HETATM 12 C C9 HAF . . . B 2 -30.119 15.857 9.072 1 27.62 ? C9 HAF 3001 A 1 HETATM 13 C C11 HAF . . . B 2 -31.943 16.608 10.634 1 33.85 ? C11 HAF 3001 A 1 HETATM 14 C C12 HAF . . . B 2 -33.069 17.403 11.279 1 27.43 ? C12 HAF 3001 A 1 HETATM 15 C C14 HAF . . . B 2 -32.583 15.461 12.585 1 31.17 ? C14 HAF 3001 A 1 HETATM 16 C C16 HAF . . . B 2 -30.607 14.438 11.092 1 31.69 ? C16 HAF 3001 A 1 HETATM 17 C C19 HAF . . . B 2 -28.767 13.749 9.47 1 29.94 ? C19 HAF 3001 A 1 HETATM 18 C C23 HAF . . . B 2 -36.952 15.284 13.16 1 32.36 ? C23 HAF 3001 A 1 HETATM 19 C C25 HAF . . . B 2 -37.945 14.484 12.328 1 35.77 ? C25 HAF 3001 A 1 HETATM 20 C C27 HAF . . . B 2 -31.265 17.831 3.836 1 40.25 ? C27 HAF 3001 A 1 HETATM 21 C C29 HAF . . . B 2 -31.135 16.93 1.656 1 48.85 ? C29 HAF 3001 A 1 HETATM 22 C C30 HAF . . . B 2 -32.514 16.981 1.538 1 42.62 ? C30 HAF 3001 A 1 HETATM 23 C C31 HAF . . . B 2 -33.273 17.456 2.586 1 46.3 ? C31 HAF 3001 A 1 HETATM 24 C C32 HAF . . . B 2 -32.639 17.88 3.749 1 43.31 ? C32 HAF 3001 A 1 HETATM 25 N N2 HAF . . . B 2 -28.537 19.289 6.092 1 41.27 ? N2 HAF 3001 A 1 HETATM 26 N N8 HAF . . . B 2 -29.415 16.199 7.865 1 35.32 ? N8 HAF 3001 A 1 HETATM 27 N N10 HAF . . . B 2 -31.157 16.815 9.445 1 29.07 ? N10 HAF 3001 A 1 HETATM 28 N N13 HAF . . . B 2 -33.65 16.399 12.195 1 32.01 ? N13 HAF 3001 A 1 HETATM 29 N N18 HAF . . . B 2 -29.819 14.668 9.887 1 31.44 ? N18 HAF 3001 A 1 HETATM 30 O O17 HAF . . . B 2 -30.475 13.493 11.8 1 21.13 ? O17 HAF 3001 A 1 HETATM 31 O O21 HAF . . . B 2 -35.069 16.678 13.938 1 43.25 ? O21 HAF 3001 A 1 HETATM 32 O O22 HAF . . . B 2 -35.93 15.576 12.257 1 42.37 ? O22 HAF 3001 A 1 HETATM 33 H H243 HAF . . . B 2 -36.463 13.464 14.04 1 34.63 ? H243 HAF 3001 A 1 HETATM 34 H H241 HAF . . . B 2 -37.233 14.427 15.034 1 34.63 ? H241 HAF 3001 A 1 HETATM 35 H H242 HAF . . . B 2 -35.704 14.682 14.71 1 34.63 ? H242 HAF 3001 A 1 HETATM 36 H H262 HAF . . . B 2 -38.266 16.866 13.007 1 24.99 ? H262 HAF 3001 A 1 HETATM 37 H H263 HAF . . . B 2 -36.921 17.261 13.745 1 24.99 ? H263 HAF 3001 A 1 HETATM 38 H H261 HAF . . . B 2 -38.025 16.418 14.507 1 24.99 ? H261 HAF 3001 A 1 HETATM 39 H H281 HAF . . . B 2 -29.574 17.318 2.875 1 55.21 ? H281 HAF 3001 A 1 HETATM 40 H H012 HAF . . . B 2 -27.409 20.544 5.525 1 48.98 ? H012 HAF 3001 A 1 HETATM 41 H H011 HAF . . . B 2 -26.872 19.054 5.505 1 48.98 ? H011 HAF 3001 A 1 HETATM 42 H H013 HAF . . . B 2 -27.032 19.82 6.882 1 48.98 ? H013 HAF 3001 A 1 HETATM 43 H H032 HAF . . . B 2 -29.053 19.437 4.174 1 47.01 ? H032 HAF 3001 A 1 HETATM 44 H H031 HAF . . . B 2 -28.526 17.993 4.579 1 47.01 ? H031 HAF 3001 A 1 HETATM 45 H H041 HAF . . . B 2 -31.031 18.994 5.565 1 46.93 ? H041 HAF 3001 A 1 HETATM 46 H H052 HAF . . . B 2 -30.012 16.429 5.492 1 46.81 ? H052 HAF 3001 A 1 HETATM 47 H H051 HAF . . . B 2 -31.416 16.837 6.112 1 46.81 ? H051 HAF 3001 A 1 HETATM 48 H H061 HAF . . . B 2 -30.524 17.88 7.766 1 43.85 ? H061 HAF 3001 A 1 HETATM 49 H H071 HAF . . . B 2 -28.618 18.911 8.011 1 46.76 ? H071 HAF 3001 A 1 HETATM 50 H H072 HAF . . . B 2 -27.818 17.832 7.185 1 46.76 ? H072 HAF 3001 A 1 HETATM 51 H H122 HAF . . . B 2 -33.719 17.682 10.616 1 33.02 ? H122 HAF 3001 A 1 HETATM 52 H H121 HAF . . . B 2 -32.719 18.16 11.773 1 33.02 ? H121 HAF 3001 A 1 HETATM 53 H H141 HAF . . . B 2 -32.122 15.801 13.368 1 37.51 ? H141 HAF 3001 A 1 HETATM 54 H H142 HAF . . . B 2 -32.961 14.578 12.721 1 37.51 ? H142 HAF 3001 A 1 HETATM 55 H H192 HAF . . . B 2 -28.824 13.605 8.513 1 36.03 ? H192 HAF 3001 A 1 HETATM 56 H H193 HAF . . . B 2 -28.877 12.902 9.931 1 36.03 ? H193 HAF 3001 A 1 HETATM 57 H H191 HAF . . . B 2 -27.902 14.127 9.69 1 36.03 ? H191 HAF 3001 A 1 HETATM 58 H H253 HAF . . . B 2 -38.397 15.076 11.707 1 43.03 ? H253 HAF 3001 A 1 HETATM 59 H H252 HAF . . . B 2 -38.597 14.07 12.914 1 43.03 ? H252 HAF 3001 A 1 HETATM 60 H H251 HAF . . . B 2 -37.472 13.797 11.833 1 43.03 ? H251 HAF 3001 A 1 HETATM 61 H H291 HAF . . . B 2 -30.627 16.611 0.945 1 58.73 ? H291 HAF 3001 A 1 HETATM 62 H H301 HAF . . . B 2 -32.927 16.693 0.756 1 51.24 ? H301 HAF 3001 A 1 HETATM 63 H H311 HAF . . . B 2 -34.2 17.492 2.517 1 55.66 ? H311 HAF 3001 A 1 HETATM 64 H H321 HAF . . . B 2 -33.14 18.205 4.462 1 52.07 ? H321 HAF 3001 A 1 HETATM 65 H H081 HAF . . . B 2 -28.78 15.712 7.551 1 42.48 ? H081 HAF 3001 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 65 #