data_3EL7 # _model_server_result.job_id F_aZ7sy1uJDORYAJEtqfpQ _model_server_result.datetime_utc '2025-07-07 03:07:25' _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 3el7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 3EL7 # _exptl.entry_id 3EL7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 495.5 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-{3-[(4-amino-1-cyclopentyl-1H-pyrazolo[3,4-d]pyrimidin-3-yl)methyl]phenyl}-3-[3-(trifluoromethyl)phenyl]urea _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 91.9 _cell.angle_gamma 90 _cell.entry_id 3EL7 _cell.length_a 42.36 _cell.length_b 63.13 _cell.length_c 56.05 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3EL7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 _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 F3 N7 O' _chem_comp.formula_weight 495.5 _chem_comp.id PD3 _chem_comp.mon_nstd_flag . _chem_comp.name 1-{3-[(4-amino-1-cyclopentyl-1H-pyrazolo[3,4-d]pyrimidin-3-yl)methyl]phenyl}-3-[3-(trifluoromethyl)phenyl]urea _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 C5 C4 PD3 doub 237 n y C4 N3 PD3 sing 238 n y C4 NBI PD3 sing 239 n y C6 C5 PD3 sing 240 n y CBE C5 PD3 sing 241 n y NAA C6 PD3 sing 242 n n C6 N1 PD3 doub 243 n y N1 C2 PD3 sing 244 n y C2 N3 PD3 doub 245 n y CBH CAQ PD3 sing 246 n n CAQ CAO PD3 sing 247 n n CAQ HAQ PD3 sing 248 n n CAQ HAQA PD3 sing 249 n n CAP CAO PD3 sing 250 n n CAO HAO PD3 sing 251 n n CAO HAOA PD3 sing 252 n n CAR CAP PD3 sing 253 n n CAP HAP PD3 sing 254 n n CAP HAPA PD3 sing 255 n n CAR CBH PD3 sing 256 n n CAR HAR PD3 sing 257 n n CAR HARA PD3 sing 258 n n NBI CBH PD3 sing 259 n n CBH HBH PD3 sing 260 n n NAV NBI PD3 sing 261 n y CBE NAV PD3 doub 262 n y C2 H2 PD3 sing 263 n n NAA HNAA PD3 sing 264 n n NAA HNAB PD3 sing 265 n n CAS CBE PD3 sing 266 n n CAZ CAS PD3 sing 267 n n CAS HAS PD3 sing 268 n n CAS HASA PD3 sing 269 n n CAH CAZ PD3 doub 270 n y CAM CAZ PD3 sing 271 n y CBB CAM PD3 doub 272 n y CAM HAM PD3 sing 273 n n CAF CAH PD3 sing 274 n y CAH HAH PD3 sing 275 n n CAF CAI PD3 doub 276 n y CAF HAF PD3 sing 277 n n CAI CBB PD3 sing 278 n y CAI HAI PD3 sing 279 n n NAW CBB PD3 sing 280 n n NAW CAY PD3 sing 281 n n NAW HNAW PD3 sing 282 n n NAX CAY PD3 sing 283 n n CAY OAB PD3 doub 284 n n NAX CBC PD3 sing 285 n n NAX HNAX PD3 sing 286 n n CAJ CBC PD3 doub 287 n y CBC CAN PD3 sing 288 n y CAN CBD PD3 doub 289 n y CAN HAN PD3 sing 290 n n CAJ CAG PD3 sing 291 n y CAJ HAJ PD3 sing 292 n n CAG CAK PD3 doub 293 n y CAG HAG PD3 sing 294 n n CAK CBD PD3 sing 295 n y CAK HAK PD3 sing 296 n n CBD CBJ PD3 sing 297 n n FAE CBJ PD3 sing 298 n n CBJ FAD PD3 sing 299 n n CBJ FAC PD3 sing 300 n n # _atom_sites.entry_id 3EL7 _atom_sites.fract_transf_matrix[1][1] 0.023607 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000783 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01584 _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] 0.017851 _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 PD3 A 1 601 601 PD3 PD3 . C 3 HOH A 1 1 1 HOH HOH . C 3 HOH A 2 2 2 HOH HOH . C 3 HOH A 3 3 3 HOH HOH . C 3 HOH A 4 4 4 HOH HOH . C 3 HOH A 5 5 5 HOH HOH . C 3 HOH A 6 6 6 HOH HOH . C 3 HOH A 7 7 7 HOH HOH . C 3 HOH A 8 8 8 HOH HOH . C 3 HOH A 9 9 9 HOH HOH . C 3 HOH A 10 10 10 HOH HOH . C 3 HOH A 11 11 11 HOH HOH . C 3 HOH A 12 12 12 HOH HOH . C 3 HOH A 13 13 13 HOH HOH . C 3 HOH A 14 14 14 HOH HOH . C 3 HOH A 15 15 15 HOH HOH . C 3 HOH A 16 16 16 HOH HOH . C 3 HOH A 17 17 17 HOH HOH . C 3 HOH A 18 18 18 HOH HOH . C 3 HOH A 19 19 19 HOH HOH . C 3 HOH A 20 20 20 HOH HOH . C 3 HOH A 21 21 21 HOH HOH . C 3 HOH A 22 22 22 HOH HOH . C 3 HOH A 23 23 23 HOH HOH . C 3 HOH A 24 24 24 HOH HOH . C 3 HOH A 25 25 25 HOH HOH . C 3 HOH A 26 26 26 HOH HOH . C 3 HOH A 27 27 27 HOH HOH . C 3 HOH A 28 28 28 HOH HOH . C 3 HOH A 29 29 29 HOH HOH . C 3 HOH A 30 30 30 HOH HOH . C 3 HOH A 31 31 31 HOH HOH . C 3 HOH A 32 32 32 HOH HOH . C 3 HOH A 33 33 33 HOH HOH . C 3 HOH A 34 34 34 HOH HOH . C 3 HOH A 35 35 35 HOH HOH . C 3 HOH A 36 36 36 HOH HOH . C 3 HOH A 37 37 37 HOH HOH . C 3 HOH A 38 38 38 HOH HOH . C 3 HOH A 39 39 39 HOH HOH . C 3 HOH A 40 40 40 HOH HOH . C 3 HOH A 41 41 41 HOH HOH . C 3 HOH A 42 42 42 HOH HOH . C 3 HOH A 43 43 43 HOH HOH . C 3 HOH A 44 44 44 HOH HOH . C 3 HOH A 45 45 45 HOH HOH . C 3 HOH A 46 46 46 HOH HOH . C 3 HOH A 47 47 47 HOH HOH . C 3 HOH A 48 48 48 HOH HOH . C 3 HOH A 49 49 49 HOH HOH . C 3 HOH A 50 50 50 HOH HOH . C 3 HOH A 51 51 51 HOH HOH . C 3 HOH A 52 52 52 HOH HOH . C 3 HOH A 53 53 53 HOH HOH . C 3 HOH A 54 54 54 HOH HOH . C 3 HOH A 55 55 55 HOH HOH . C 3 HOH A 56 56 56 HOH HOH . C 3 HOH A 57 57 57 HOH HOH . C 3 HOH A 58 58 58 HOH HOH . C 3 HOH A 59 59 59 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 PD3 . . . B 2 22.696 -8.903 9.752 1 79.18 ? C4 PD3 601 A 1 HETATM 2 C C5 PD3 . . . B 2 22.613 -7.731 9.017 1 79 ? C5 PD3 601 A 1 HETATM 3 C C6 PD3 . . . B 2 23.78 -7.183 8.505 1 77.9 ? C6 PD3 601 A 1 HETATM 4 N N1 PD3 . . . B 2 24.945 -7.806 8.741 1 77.45 ? N1 PD3 601 A 1 HETATM 5 N N3 PD3 . . . B 2 23.891 -9.475 9.953 1 77.36 ? N3 PD3 601 A 1 HETATM 6 C CAQ PD3 . . . B 2 21.182 -10.041 12.438 1 82.2 ? CAQ PD3 601 A 1 HETATM 7 C CAO PD3 . . . B 2 21.882 -11.272 13.021 1 81.81 ? CAO PD3 601 A 1 HETATM 8 C CAP PD3 . . . B 2 21.628 -12.347 11.963 1 81.82 ? CAP PD3 601 A 1 HETATM 9 C CAR PD3 . . . B 2 21.984 -11.542 10.714 1 82 ? CAR PD3 601 A 1 HETATM 10 C CBH PD3 . . . B 2 21.069 -10.337 10.939 1 81.59 ? CBH PD3 601 A 1 HETATM 11 N NBI PD3 . . . B 2 21.446 -9.177 10.119 1 80.46 ? NBI PD3 601 A 1 HETATM 12 N NAV PD3 . . . B 2 20.642 -8.341 9.703 1 80.6 ? NAV PD3 601 A 1 HETATM 13 C C2 PD3 . . . B 2 24.983 -8.921 9.45 1 77.19 ? C2 PD3 601 A 1 HETATM 14 N NAA PD3 . . . B 2 23.743 -6.053 7.804 1 77.36 ? NAA PD3 601 A 1 HETATM 15 C CBE PD3 . . . B 2 21.265 -7.391 9.007 1 80.26 ? CBE PD3 601 A 1 HETATM 16 C CAS PD3 . . . B 2 20.635 -6.146 8.379 1 80.75 ? CAS PD3 601 A 1 HETATM 17 C CAZ PD3 . . . B 2 19.434 -6.525 7.509 1 80.55 ? CAZ PD3 601 A 1 HETATM 18 C CAM PD3 . . . B 2 18.284 -5.742 7.501 1 81.24 ? CAM PD3 601 A 1 HETATM 19 C CAH PD3 . . . B 2 19.509 -7.668 6.723 1 80.35 ? CAH PD3 601 A 1 HETATM 20 C CAF PD3 . . . B 2 18.432 -8.036 5.925 1 80.82 ? CAF PD3 601 A 1 HETATM 21 C CAI PD3 . . . B 2 17.283 -7.254 5.923 1 81.44 ? CAI PD3 601 A 1 HETATM 22 C CBB PD3 . . . B 2 17.203 -6.111 6.708 1 81.96 ? CBB PD3 601 A 1 HETATM 23 N NAW PD3 . . . B 2 16.07 -5.415 6.632 1 82.61 ? NAW PD3 601 A 1 HETATM 24 C CAY PD3 . . . B 2 15.762 -4.274 7.243 1 82.9 ? CAY PD3 601 A 1 HETATM 25 O OAB PD3 . . . B 2 16.539 -3.675 7.983 1 82.41 ? OAB PD3 601 A 1 HETATM 26 N NAX PD3 . . . B 2 14.528 -3.856 6.974 1 83.28 ? NAX PD3 601 A 1 HETATM 27 C CBC PD3 . . . B 2 13.918 -2.751 7.401 1 83.41 ? CBC PD3 601 A 1 HETATM 28 C CAN PD3 . . . B 2 14.565 -1.756 8.125 1 83.91 ? CAN PD3 601 A 1 HETATM 29 C CAJ PD3 . . . B 2 12.603 -2.563 6.997 1 82.98 ? CAJ PD3 601 A 1 HETATM 30 C CAG PD3 . . . B 2 11.923 -1.392 7.308 1 83.7 ? CAG PD3 601 A 1 HETATM 31 C CAK PD3 . . . B 2 12.573 -0.397 8.029 1 84.03 ? CAK PD3 601 A 1 HETATM 32 C CBD PD3 . . . B 2 13.889 -0.58 8.43 1 84.32 ? CBD PD3 601 A 1 HETATM 33 C CBJ PD3 . . . B 2 14.591 0.574 9.151 1 84.73 ? CBJ PD3 601 A 1 HETATM 34 F FAD PD3 . . . B 2 15.678 0.137 9.775 1 85.35 ? FAD PD3 601 A 1 HETATM 35 F FAE PD3 . . . B 2 14.941 1.492 8.259 1 84.78 ? FAE PD3 601 A 1 HETATM 36 F FAC PD3 . . . B 2 13.76 1.111 10.036 1 84.71 ? FAC PD3 601 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 257 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 36 #