data_3ML8 # _model_server_result.job_id ijW_MqjEC5cpWiWKm52rHw _model_server_result.datetime_utc '2025-04-22 01:56:21' _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 3ml8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":9999}' # _entry.id 3ML8 # _exptl.entry_id 3ML8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 364.441 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 8-cyclopentyl-6-[3-(hydroxymethyl)phenyl]-4-methyl-2-(methylamino)pyrido[2,3-d]pyrimidin-7(8H)-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 95.12 _cell.angle_gamma 90 _cell.entry_id 3ML8 _cell.length_a 144.237 _cell.length_b 67.388 _cell.length_c 106.875 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ML8 _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 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 _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 'C21 H24 N4 O2' _chem_comp.formula_weight 364.441 _chem_comp.id ML8 _chem_comp.mon_nstd_flag . _chem_comp.name 8-cyclopentyl-6-[3-(hydroxymethyl)phenyl]-4-methyl-2-(methylamino)pyrido[2,3-d]pyrimidin-7(8H)-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 C24 H24 ML8 sing 235 n n C25 C24 ML8 sing 236 n y C25 H25 ML8 sing 237 n n C23 C24 ML8 doub 238 n y C23 H23 ML8 sing 239 n n C21 C22 ML8 doub 240 n y C21 C14 ML8 sing 241 n y C21 H21 ML8 sing 242 n n C14 C25 ML8 doub 243 n y C1 C9 ML8 sing 244 n n C1 C2 ML8 sing 245 n y C22 C23 ML8 sing 246 n y C6 C1 ML8 doub 247 n y C2 N7 ML8 sing 248 n n C4 N3 ML8 sing 249 n y C9 C10 ML8 doub 250 n n C9 H9 ML8 sing 251 n n C10 C14 ML8 sing 252 n n C10 C11 ML8 sing 253 n n C11 O12 ML8 doub 254 n n C16 C17 ML8 sing 255 n n C16 H16 ML8 sing 256 n n C16 H16A ML8 sing 257 n n C17 H17 ML8 sing 258 n n C17 H17A ML8 sing 259 n n C15 C16 ML8 sing 260 n n C15 C8 ML8 sing 261 n n C15 H15 ML8 sing 262 n n C15 H15A ML8 sing 263 n n C18 C17 ML8 sing 264 n n C18 H18 ML8 sing 265 n n C18 H18A ML8 sing 266 n n C8 C18 ML8 sing 267 n n C8 H8 ML8 sing 268 n n C13 C6 ML8 sing 269 n n C13 H13 ML8 sing 270 n n C13 H13A ML8 sing 271 n n C13 H13B ML8 sing 272 n n C19 H19 ML8 sing 273 n n C19 H19A ML8 sing 274 n n C26 C22 ML8 sing 275 n n C26 H26 ML8 sing 276 n n C26 H26A ML8 sing 277 n n N5 C6 ML8 sing 278 n y N5 C4 ML8 doub 279 n y N3 C2 ML8 doub 280 n y N7 C11 ML8 sing 281 n n N7 C8 ML8 sing 282 n n N20 C4 ML8 sing 283 n n N20 C19 ML8 sing 284 n n O27 C26 ML8 sing 285 n n O27 HO27 ML8 sing 286 n n C19 H231 ML8 sing 287 n n N20 H241 ML8 sing 288 n n # _atom_sites.entry_id 3ML8 _atom_sites.fract_transf_matrix[1][1] 0.006933 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000621 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014839 _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] 0.009394 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id ML8 _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 9999 _pdbx_nonpoly_scheme.auth_seq_num 9999 _pdbx_nonpoly_scheme.pdb_mon_id ML8 _pdbx_nonpoly_scheme.auth_mon_id ML8 _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C24 ML8 . . . B 2 40.238 13.791 32.447 1 55.14 ? C24 ML8 9999 A 1 HETATM 2 C C25 ML8 . . . B 2 41.566 14.184 32.143 1 53.86 ? C25 ML8 9999 A 1 HETATM 3 C C23 ML8 . . . B 2 39.627 12.733 31.747 1 51.89 ? C23 ML8 9999 A 1 HETATM 4 C C21 ML8 . . . B 2 41.666 12.448 30.433 1 51.37 ? C21 ML8 9999 A 1 HETATM 5 C C14 ML8 . . . B 2 42.33 13.526 31.123 1 52.74 ? C14 ML8 9999 A 1 HETATM 6 C C1 ML8 . . . B 2 45.886 13.461 29.57 1 48.91 ? C1 ML8 9999 A 1 HETATM 7 C C22 ML8 . . . B 2 40.335 12.058 30.741 1 51.66 ? C22 ML8 9999 A 1 HETATM 8 C C6 ML8 . . . B 2 46.652 12.654 28.713 1 50.17 ? C6 ML8 9999 A 1 HETATM 9 C C2 ML8 . . . B 2 46.525 14.609 30.058 1 48.98 ? C2 ML8 9999 A 1 HETATM 10 C C4 ML8 . . . B 2 48.504 14.089 28.887 1 52.7 ? C4 ML8 9999 A 1 HETATM 11 C C9 ML8 . . . B 2 44.509 13.168 29.957 1 47.98 ? C9 ML8 9999 A 1 HETATM 12 C C10 ML8 . . . B 2 43.771 13.947 30.786 1 51.21 ? C10 ML8 9999 A 1 HETATM 13 C C11 ML8 . . . B 2 44.453 15.223 31.338 1 50.92 ? C11 ML8 9999 A 1 HETATM 14 C C16 ML8 . . . B 2 45.637 18.706 32.529 1 58.66 ? C16 ML8 9999 A 1 HETATM 15 C C17 ML8 . . . B 2 46.759 18.117 33.385 1 59.6 ? C17 ML8 9999 A 1 HETATM 16 C C15 ML8 . . . B 2 45.805 18.045 31.163 1 58.81 ? C15 ML8 9999 A 1 HETATM 17 C C18 ML8 . . . B 2 46.816 16.658 32.951 1 58.4 ? C18 ML8 9999 A 1 HETATM 18 C C8 ML8 . . . B 2 46.561 16.713 31.428 1 56.37 ? C8 ML8 9999 A 1 HETATM 19 C C13 ML8 . . . B 2 46.119 11.402 28.097 1 50.47 ? C13 ML8 9999 A 1 HETATM 20 C C19 ML8 . . . B 2 50.642 15.18 29.437 1 52.94 ? C19 ML8 9999 A 1 HETATM 21 C C26 ML8 . . . B 2 39.698 10.943 29.996 1 56.04 ? C26 ML8 9999 A 1 HETATM 22 N N5 ML8 . . . B 2 47.948 12.957 28.374 1 51.5 ? N5 ML8 9999 A 1 HETATM 23 N N3 ML8 . . . B 2 47.809 14.912 29.719 1 49.32 ? N3 ML8 9999 A 1 HETATM 24 N N7 ML8 . . . B 2 45.806 15.489 30.941 1 51.66 ? N7 ML8 9999 A 1 HETATM 25 N N20 ML8 . . . B 2 49.84 14.384 28.516 1 54.34 ? N20 ML8 9999 A 1 HETATM 26 O O12 ML8 . . . B 2 43.832 15.973 32.096 1 50 ? O12 ML8 9999 A 1 HETATM 27 O O27 ML8 . . . B 2 38.947 11.488 28.915 1 56.35 ? O27 ML8 9999 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #