data_6CK6 # _model_server_result.job_id 1MYX-Z-kppBAPrjSrUo-PA _model_server_result.datetime_utc '2024-11-26 10:10:47' _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 6ck6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 6CK6 # _exptl.entry_id 6CK6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 340.38 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "6'-[(6-aminopyrimidin-4-yl)amino]-8'-methyl-2'H-spiro[cyclohexane-1,3'-imidazo[1,5-a]pyridine]-1',5'-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 120 _cell.entry_id 6CK6 _cell.length_a 105.787 _cell.length_b 105.787 _cell.length_c 71.942 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CK6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 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,C,D _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 C _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 242 A CYS 311 1_555 A SG CYS 245 A CYS 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? covale ? covale1 A O GLY 1 A GLY 70 1_555 A N CYS 230 A CYS 299 3_665 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? covale ? covale2 A CA GLY 1 A GLY 70 1_555 A SG CYS 242 A CYS 311 3_665 ? ? ? ? ? ? ? ? ? ? ? ? 1.711 ? metalc ? metalc1 A SG CYS 230 A CYS 299 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.581 ? metalc ? metalc2 A SG CYS 242 A CYS 311 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc3 A SG CYS 245 A CYS 314 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? # _chem_comp.formula 'C17 H20 N6 O2' _chem_comp.formula_weight 340.38 _chem_comp.id N45 _chem_comp.mon_nstd_flag . _chem_comp.name "6'-[(6-aminopyrimidin-4-yl)amino]-8'-methyl-2'H-spiro[cyclohexane-1,3'-imidazo[1,5-a]pyridine]-1',5'-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 N6 C6 N45 sing 237 n n C5 C6 N45 doub 238 n y C5 C3 N45 sing 239 n y C6 N3 N45 sing 240 n y O1 C1 N45 doub 241 n n C13 C16 N45 sing 242 n n C13 C12 N45 sing 243 n n C16 C15 N45 sing 244 n n C12 C11 N45 sing 245 n n N1 C3 N45 sing 246 n n N1 C2 N45 sing 247 n n C3 N2 N45 doub 248 n y N3 C4 N45 doub 249 n y C1 C2 N45 sing 250 n n C1 N4 N45 sing 251 n n C2 C7 N45 doub 252 n n C4 N2 N45 sing 253 n y C15 C14 N45 sing 254 n n C11 C14 N45 sing 255 n n C11 N4 N45 sing 256 n n C11 N5 N45 sing 257 n n N4 C9 N45 sing 258 n n C7 C8 N45 sing 259 n n N5 C10 N45 sing 260 n n C9 C8 N45 doub 261 n n C9 C10 N45 sing 262 n n C8 C17 N45 sing 263 n n C10 O2 N45 doub 264 n n C14 H1 N45 sing 265 n n C14 H2 N45 sing 266 n n C15 H3 N45 sing 267 n n C15 H4 N45 sing 268 n n C16 H5 N45 sing 269 n n C16 H6 N45 sing 270 n n C13 H7 N45 sing 271 n n C13 H8 N45 sing 272 n n C12 H9 N45 sing 273 n n C12 H10 N45 sing 274 n n N5 H11 N45 sing 275 n n C17 H12 N45 sing 276 n n C17 H13 N45 sing 277 n n C17 H14 N45 sing 278 n n C7 H15 N45 sing 279 n n N1 H16 N45 sing 280 n n C5 H17 N45 sing 281 n n N6 H18 N45 sing 282 n n N6 H19 N45 sing 283 n n C4 H20 N45 sing 284 n n # _atom_sites.entry_id 6CK6 _atom_sites.fract_transf_matrix[1][1] 0.009453 _atom_sites.fract_transf_matrix[1][2] 0.005458 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010915 _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] 0.0139 _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 ZN A 1 401 41 ZN ZN . C 3 N45 A 1 402 1 N45 n45 . D 4 HOH A 1 501 27 HOH HOH . D 4 HOH A 2 502 7 HOH HOH . D 4 HOH A 3 503 34 HOH HOH . D 4 HOH A 4 504 21 HOH HOH . D 4 HOH A 5 505 10 HOH HOH . D 4 HOH A 6 506 26 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 O2 N45 . . . C 3 54.638 15.617 2.774 1 32.8 ? O2 N45 402 A 1 HETATM 2 C C10 N45 . . . C 3 55.315 15.873 1.691 1 32.53 ? C10 N45 402 A 1 HETATM 3 C C9 N45 . . . C 3 55.352 17.216 1.05 1 31.49 ? C9 N45 402 A 1 HETATM 4 N N4 N45 . . . C 3 56.144 17.042 -0.014 1 31.32 ? N4 N45 402 A 1 HETATM 5 C C11 N45 . . . C 3 56.645 15.662 -0.168 1 31.48 ? C11 N45 402 A 1 HETATM 6 C C14 N45 . . . C 3 58.194 15.63 -0.056 1 30.95 ? C14 N45 402 A 1 HETATM 7 C C15 N45 . . . C 3 58.736 14.192 -0.224 1 32.44 ? C15 N45 402 A 1 HETATM 8 C C16 N45 . . . C 3 58.239 13.509 -1.52 1 32.85 ? C16 N45 402 A 1 HETATM 9 C C13 N45 . . . C 3 56.698 13.607 -1.714 1 32.45 ? C13 N45 402 A 1 HETATM 10 C C12 N45 . . . C 3 56.13 15.025 -1.48 1 31.18 ? C12 N45 402 A 1 HETATM 11 N N5 N45 . . . C 3 56.033 14.962 0.999 1 31.71 ? N5 N45 402 A 1 HETATM 12 C C8 N45 . . . C 3 54.75 18.525 1.377 1 31.69 ? C8 N45 402 A 1 HETATM 13 C C17 N45 . . . C 3 53.878 18.64 2.611 1 31.77 ? C17 N45 402 A 1 HETATM 14 C C7 N45 . . . C 3 55.008 19.617 0.55 1 31.85 ? C7 N45 402 A 1 HETATM 15 C C2 N45 . . . C 3 55.835 19.452 -0.573 1 32.73 ? C2 N45 402 A 1 HETATM 16 C C1 N45 . . . C 3 56.423 18.067 -0.851 1 32.61 ? C1 N45 402 A 1 HETATM 17 O O1 N45 . . . C 3 57.185 17.838 -1.839 1 32.97 ? O1 N45 402 A 1 HETATM 18 N N1 N45 . . . C 3 56.1 20.575 -1.327 1 33.21 ? N1 N45 402 A 1 HETATM 19 C C3 N45 . . . C 3 55.397 21.762 -1.282 1 33.61 ? C3 N45 402 A 1 HETATM 20 C C5 N45 . . . C 3 55.661 22.713 -2.31 1 34.38 ? C5 N45 402 A 1 HETATM 21 C C6 N45 . . . C 3 55.008 23.974 -2.295 1 34.32 ? C6 N45 402 A 1 HETATM 22 N N6 N45 . . . C 3 55.256 24.894 -3.294 1 33.82 ? N6 N45 402 A 1 HETATM 23 N N3 N45 . . . C 3 54.128 24.244 -1.264 1 33.09 ? N3 N45 402 A 1 HETATM 24 C C4 N45 . . . C 3 53.892 23.308 -0.289 1 32.66 ? C4 N45 402 A 1 HETATM 25 N N2 N45 . . . C 3 54.497 22.09 -0.284 1 31.72 ? N2 N45 402 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 256 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 25 #