data_6PBO # _model_server_result.job_id -8cvM08RCkfcmbvgP0-G5g _model_server_result.datetime_utc '2024-11-15 22:30:19' _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 6pbo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 6PBO # _exptl.entry_id 6PBO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 444.482 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(4-{6-[(2S)-4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl]-2H-1,3-benzodioxol-4-yl}phenyl)acetic acid' _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 6PBO _cell.length_a 78.94 _cell.length_b 78.94 _cell.length_c 108.27 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PBO _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 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 _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 'C25 H24 N4 O4' _chem_comp.formula_weight 444.482 _chem_comp.id O71 _chem_comp.mon_nstd_flag . _chem_comp.name '(4-{6-[(2S)-4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl]-2H-1,3-benzodioxol-4-yl}phenyl)acetic acid' _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 OBC CBA O71 doub 304 n n OBB CBA O71 sing 305 n n CBA CAZ O71 sing 306 n n CAZ CAW O71 sing 307 n n NAG C6 O71 sing 308 n n CAV CAW O71 doub 309 n y CAV CAU O71 sing 310 n y CAW CAX O71 sing 311 n y N1 C6 O71 doub 312 n y N1 C2 O71 sing 313 n y NAH C2 O71 sing 314 n n C6 C5 O71 sing 315 n y C2 N3 O71 doub 316 n y CAU CAT O71 doub 317 n y CAX CAY O71 doub 318 n y C5 CAK O71 sing 319 n n C5 C4 O71 doub 320 n y N3 C4 O71 sing 321 n y CAT CAY O71 sing 322 n y CAT CAP O71 sing 323 n n CAK CAL O71 trip 324 n n C4 CAI O71 sing 325 n n CAL CAM O71 sing 326 n n CAO CAP O71 doub 327 n y CAO CAN O71 sing 328 n y CAJ CAI O71 sing 329 n n CAP CAQ O71 sing 330 n y CAM CAN O71 sing 331 n n CAM CBG O71 sing 332 n n CAN CAS O71 doub 333 n y CAQ OBD O71 sing 334 n n CAQ CAR O71 doub 335 n y CAS CAR O71 sing 336 n y OBD CBE O71 sing 337 n n CAR OBF O71 sing 338 n n CBE OBF O71 sing 339 n n CAI H1 O71 sing 340 n n CAI H2 O71 sing 341 n n CAJ H3 O71 sing 342 n n CAJ H4 O71 sing 343 n n CAJ H5 O71 sing 344 n n CAM H6 O71 sing 345 n n CAO H7 O71 sing 346 n n CAS H8 O71 sing 347 n n CAU H9 O71 sing 348 n n CAV H10 O71 sing 349 n n CAX H11 O71 sing 350 n n CAY H12 O71 sing 351 n n CAZ H13 O71 sing 352 n n CAZ H14 O71 sing 353 n n CBE H15 O71 sing 354 n n CBE H16 O71 sing 355 n n CBG H17 O71 sing 356 n n CBG H18 O71 sing 357 n n CBG H19 O71 sing 358 n n NAG H20 O71 sing 359 n n NAG H21 O71 sing 360 n n NAH H22 O71 sing 361 n n NAH H23 O71 sing 362 n n OBB H24 O71 sing 363 n n # _atom_sites.entry_id 6PBO _atom_sites.fract_transf_matrix[1][1] 0.012668 _atom_sites.fract_transf_matrix[1][2] 0.007314 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014628 _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] 0.009236 _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 O71 X 1 201 1 O71 DRG . C 3 XNP X 1 202 1 XNP ANH . D 4 NAP X 1 203 208 NAP NAP . E 5 HOH X 1 301 5 HOH HOH . E 5 HOH X 2 302 40 HOH HOH . E 5 HOH X 3 303 26 HOH HOH . E 5 HOH X 4 304 27 HOH HOH . E 5 HOH X 5 305 32 HOH HOH . E 5 HOH X 6 306 6 HOH HOH . E 5 HOH X 7 307 18 HOH HOH . E 5 HOH X 8 308 13 HOH HOH . E 5 HOH X 9 309 2 HOH HOH . E 5 HOH X 10 310 38 HOH HOH . E 5 HOH X 11 311 9 HOH HOH . E 5 HOH X 12 312 37 HOH HOH . E 5 HOH X 13 313 25 HOH HOH . E 5 HOH X 14 314 29 HOH HOH . E 5 HOH X 15 315 8 HOH HOH . E 5 HOH X 16 316 20 HOH HOH . E 5 HOH X 17 317 33 HOH HOH . E 5 HOH X 18 318 31 HOH HOH . E 5 HOH X 19 319 34 HOH HOH . E 5 HOH X 20 320 21 HOH HOH . E 5 HOH X 21 321 14 HOH HOH . E 5 HOH X 22 322 3 HOH HOH . E 5 HOH X 23 323 5 HOH HOH . E 5 HOH X 24 324 42 HOH HOH . E 5 HOH X 25 325 23 HOH HOH . E 5 HOH X 26 326 2 HOH HOH . E 5 HOH X 27 327 35 HOH HOH . E 5 HOH X 28 328 16 HOH HOH . E 5 HOH X 29 329 19 HOH HOH . E 5 HOH X 30 330 30 HOH HOH . E 5 HOH X 31 331 28 HOH HOH . E 5 HOH X 32 332 7 HOH HOH . E 5 HOH X 33 333 24 HOH HOH . E 5 HOH X 34 334 15 HOH HOH . E 5 HOH X 35 335 22 HOH HOH . E 5 HOH X 36 336 17 HOH HOH . E 5 HOH X 37 337 10 HOH HOH . E 5 HOH X 38 338 1 HOH HOH . E 5 HOH X 39 339 4 HOH HOH . E 5 HOH X 40 340 4 HOH HOH . E 5 HOH X 41 341 12 HOH HOH . E 5 HOH X 42 342 36 HOH HOH . E 5 HOH X 43 343 11 HOH HOH . E 5 HOH X 44 344 41 HOH HOH . E 5 HOH X 45 345 39 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 C4 O71 . . . B 2 -28.463 -9.117 41.911 1 16.83 ? C4 O71 201 X 1 HETATM 2 C C5 O71 . . . B 2 -28.055 -10.32 41.343 1 16.81 ? C5 O71 201 X 1 HETATM 3 C C6 O71 . . . B 2 -27.076 -10.279 40.353 1 17.72 ? C6 O71 201 X 1 HETATM 4 N N1 O71 . . . B 2 -26.548 -9.118 39.951 1 15.96 ? N1 O71 201 X 1 HETATM 5 N N3 O71 . . . B 2 -27.9 -7.978 41.476 1 16.94 ? N3 O71 201 X 1 HETATM 6 C C2 O71 . . . B 2 -26.953 -7.974 40.52 1 17.06 ? C2 O71 201 X 1 HETATM 7 C CAI O71 . . . B 2 -29.435 -9.055 42.912 1 18.38 ? CAI O71 201 X 1 HETATM 8 C CAJ O71 . . . B 2 -30.765 -8.524 42.347 1 20.29 ? CAJ O71 201 X 1 HETATM 9 C CAK O71 . . . B 2 -28.642 -11.576 41.775 1 19.11 ? CAK O71 201 X 1 HETATM 10 C CAL O71 . . . B 2 -29.149 -12.53 42.162 1 19.37 ? CAL O71 201 X 1 HETATM 11 C CAM O71 . . . B 2 -29.895 -13.724 42.701 1 21.24 ? CAM O71 201 X 1 HETATM 12 C CAN O71 . . . B 2 -31.192 -13.272 43.005 1 23.27 ? CAN O71 201 X 1 HETATM 13 C CAO O71 . . . B 2 -31.889 -12.389 42.171 1 20.83 ? CAO O71 201 X 1 HETATM 14 C CAP O71 . . . B 2 -33.18 -11.964 42.519 1 29.27 ? CAP O71 201 X 1 HETATM 15 C CAQ O71 . . . B 2 -33.724 -12.43 43.659 1 36.36 ? CAQ O71 201 X 1 HETATM 16 C CAR O71 . . . B 2 -33.053 -13.275 44.462 1 37.32 ? CAR O71 201 X 1 HETATM 17 C CAS O71 . . . B 2 -31.82 -13.688 44.166 1 24.67 ? CAS O71 201 X 1 HETATM 18 C CAT O71 . . . B 2 -33.892 -11.077 41.667 1 30.99 ? CAT O71 201 X 1 HETATM 19 C CAU O71 . . . B 2 -33.208 -10.286 40.737 1 21.87 ? CAU O71 201 X 1 HETATM 20 C CAV O71 . . . B 2 -33.882 -9.411 39.883 1 25.06 ? CAV O71 201 X 1 HETATM 21 C CAW O71 . . . B 2 -35.271 -9.315 39.921 1 21.6 ? CAW O71 201 X 1 HETATM 22 C CAX O71 . . . B 2 -35.973 -10.084 40.843 1 26.69 ? CAX O71 201 X 1 HETATM 23 C CAY O71 . . . B 2 -35.289 -10.956 41.692 1 29.44 ? CAY O71 201 X 1 HETATM 24 C CAZ O71 . . . B 2 -35.933 -8.422 39.069 1 26.02 ? CAZ O71 201 X 1 HETATM 25 C CBA O71 . . . B 2 -36.219 -9.001 37.663 1 31.89 ? CBA O71 201 X 1 HETATM 26 C CBE O71 . . . B 2 -35.129 -13.296 45.112 1 36.88 ? CBE O71 201 X 1 HETATM 27 C CBG O71 . . . B 2 -29.233 -14.326 43.927 1 24.5 ? CBG O71 201 X 1 HETATM 28 N NAG O71 . . . B 2 -26.688 -11.424 39.818 1 17.24 ? NAG O71 201 X 1 HETATM 29 N NAH O71 . . . B 2 -26.412 -6.82 40.126 1 19.35 ? NAH O71 201 X 1 HETATM 30 O OBB O71 . . . B 2 -37.428 -9.223 37.379 1 30.17 ? OBB O71 201 X 1 HETATM 31 O OBC O71 . . . B 2 -35.239 -9.127 36.878 1 25.53 ? OBC O71 201 X 1 HETATM 32 O OBD O71 . . . B 2 -34.937 -12.168 44.219 1 47.23 ? OBD O71 201 X 1 HETATM 33 O OBF O71 . . . B 2 -33.8 -13.6 45.558 1 41.65 ? OBF O71 201 X 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 33 #