data_5TX3 # _model_server_result.job_id xsvhZgvbg0-FxmRkRad7DA _model_server_result.datetime_utc '2024-12-03 04:18:19' _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 5tx3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1000}' # _entry.id 5TX3 # _exptl.entry_id 5TX3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 469.578 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 7-[(1S)-4-hydroxy-2,3-dihydro-1H-inden-1-yl]-5,5-dimethyl-2-({3-[(pyrrolidin-1-yl)methyl]phenyl}amino)-5,7-dihydro-6H-pyrrolo[2,3-d]pyrimidin-6-one _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 110.86 _cell.angle_gamma 90 _cell.entry_id 5TX3 _cell.length_a 64.62 _cell.length_b 78.67 _cell.length_c 78.96 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TX3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C28 H31 N5 O2' _chem_comp.formula_weight 469.578 _chem_comp.id 7MY _chem_comp.mon_nstd_flag . _chem_comp.name 7-[(1S)-4-hydroxy-2,3-dihydro-1H-inden-1-yl]-5,5-dimethyl-2-({3-[(pyrrolidin-1-yl)methyl]phenyl}amino)-5,7-dihydro-6H-pyrrolo[2,3-d]pyrimidin-6-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 CAB CBI 7MY sing 1 n n CAF CAH 7MY doub 2 n y CAF CAJ 7MY sing 3 n y C6 N1 7MY doub 4 n y C6 C5 7MY sing 5 n y N1 C2 7MY sing 6 n y CAH CAY 7MY sing 7 n y CAJ CBB 7MY doub 8 n y C5 CBI 7MY sing 9 n n C5 C4 7MY doub 10 n y CBI CAA 7MY sing 11 n n CBI CAW 7MY sing 12 n n C2 NAV 7MY sing 13 n n C2 N3 7MY doub 14 n y NAV CAZ 7MY sing 15 n n CAZ CAI 7MY doub 16 n y CAZ CAL 7MY sing 17 n y C4 N3 7MY sing 18 n y C4 NBH 7MY sing 19 n n CAI CAE 7MY sing 20 n y CAW NBH 7MY sing 21 n n CAW OAC 7MY doub 22 n n CAL CAX 7MY doub 23 n y CAY OAD 7MY sing 24 n n CAY CBC 7MY doub 25 n y CBB CBC 7MY sing 26 n y CBB CBF 7MY sing 27 n n NBH CBF 7MY sing 28 n n CAE CAG 7MY doub 29 n y CAX CAG 7MY sing 30 n y CAX CAS 7MY sing 31 n n CBC CAO 7MY sing 32 n n CAS NBG 7MY sing 33 n n CBF CAP 7MY sing 34 n n CAP CAO 7MY sing 35 n n NBG CAR 7MY sing 36 n n NBG CAQ 7MY sing 37 n n CAR CAN 7MY sing 38 n n CAQ CAM 7MY sing 39 n n CAN CAM 7MY sing 40 n n C6 H1 7MY sing 41 n n CAQ H2 7MY sing 42 n n CAQ H3 7MY sing 43 n n CAM H4 7MY sing 44 n n CAM H5 7MY sing 45 n n CAN H6 7MY sing 46 n n CAN H7 7MY sing 47 n n CAR H8 7MY sing 48 n n CAR H9 7MY sing 49 n n CAS H11 7MY sing 50 n n CAS H12 7MY sing 51 n n CAL H13 7MY sing 52 n n CAG H14 7MY sing 53 n n CAE H15 7MY sing 54 n n CAI H16 7MY sing 55 n n NAV H17 7MY sing 56 n n CAA H18 7MY sing 57 n n CAA H19 7MY sing 58 n n CAA H20 7MY sing 59 n n CAB H21 7MY sing 60 n n CAB H22 7MY sing 61 n n CAB H23 7MY sing 62 n n CBF H24 7MY sing 63 n n CAP H25 7MY sing 64 n n CAP H26 7MY sing 65 n n CAO H27 7MY sing 66 n n CAO H28 7MY sing 67 n n CAJ H29 7MY sing 68 n n CAF H30 7MY sing 69 n n CAH H31 7MY sing 70 n n OAD H32 7MY sing 71 n n # _atom_sites.entry_id 5TX3 _atom_sites.fract_transf_matrix[1][1] 0.015475 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005896 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012711 _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] 0.013553 _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 C 2 7MY A 1 1000 1000 7MY DRG . D 2 7MY B 1 1001 1001 7MY DRG . E 3 HOH A 1 1101 47 HOH HOH . E 3 HOH A 2 1102 33 HOH HOH . E 3 HOH A 3 1103 19 HOH HOH . E 3 HOH A 4 1104 94 HOH HOH . E 3 HOH A 5 1105 73 HOH HOH . E 3 HOH A 6 1106 91 HOH HOH . E 3 HOH A 7 1107 92 HOH HOH . E 3 HOH A 8 1108 30 HOH HOH . E 3 HOH A 9 1109 4 HOH HOH . E 3 HOH A 10 1110 85 HOH HOH . E 3 HOH A 11 1111 83 HOH HOH . E 3 HOH A 12 1112 51 HOH HOH . E 3 HOH A 13 1113 5 HOH HOH . E 3 HOH A 14 1114 84 HOH HOH . E 3 HOH A 15 1115 86 HOH HOH . E 3 HOH A 16 1116 97 HOH HOH . E 3 HOH A 17 1117 89 HOH HOH . E 3 HOH A 18 1118 95 HOH HOH . E 3 HOH A 19 1119 88 HOH HOH . E 3 HOH A 20 1120 3 HOH HOH . E 3 HOH A 21 1121 72 HOH HOH . E 3 HOH A 22 1122 90 HOH HOH . E 3 HOH A 23 1123 68 HOH HOH . E 3 HOH A 24 1124 18 HOH HOH . E 3 HOH A 25 1125 79 HOH HOH . E 3 HOH A 26 1126 2 HOH HOH . E 3 HOH A 27 1127 96 HOH HOH . E 3 HOH A 28 1128 71 HOH HOH . E 3 HOH A 29 1129 70 HOH HOH . E 3 HOH A 30 1130 78 HOH HOH . E 3 HOH A 31 1131 69 HOH HOH . E 3 HOH A 32 1132 66 HOH HOH . F 3 HOH B 1 1101 9 HOH HOH . F 3 HOH B 2 1102 1 HOH HOH . F 3 HOH B 3 1103 87 HOH HOH . F 3 HOH B 4 1104 74 HOH HOH . F 3 HOH B 5 1105 6 HOH HOH . F 3 HOH B 6 1106 93 HOH HOH . F 3 HOH B 7 1107 80 HOH HOH . F 3 HOH B 8 1108 14 HOH HOH . F 3 HOH B 9 1109 53 HOH HOH . F 3 HOH B 10 1110 15 HOH HOH . F 3 HOH B 11 1111 75 HOH HOH . F 3 HOH B 12 1112 10 HOH HOH . F 3 HOH B 13 1113 16 HOH HOH . F 3 HOH B 14 1114 54 HOH HOH . F 3 HOH B 15 1115 76 HOH HOH . F 3 HOH B 16 1116 82 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 7MY . . . C 2 17.171 -8.56 35.355 1 39.38 ? C4 7MY 1000 A 1 HETATM 2 C C5 7MY . . . C 2 18.272 -8.672 34.654 1 38.62 ? C5 7MY 1000 A 1 HETATM 3 C C6 7MY . . . C 2 18.882 -7.589 33.895 1 39.59 ? C6 7MY 1000 A 1 HETATM 4 N N1 7MY . . . C 2 18.263 -6.38 33.957 1 44.74 ? N1 7MY 1000 A 1 HETATM 5 N N3 7MY . . . C 2 16.522 -7.294 35.388 1 36.76 ? N3 7MY 1000 A 1 HETATM 6 C CAQ 7MY . . . C 2 13.891 -2.004 38.972 1 79.48 ? CAQ 7MY 1000 A 1 HETATM 7 C CAM 7MY . . . C 2 15.229 -1.273 39.211 1 75.46 ? CAM 7MY 1000 A 1 HETATM 8 C CAN 7MY . . . C 2 14.803 0.179 39.135 1 75.95 ? CAN 7MY 1000 A 1 HETATM 9 C CAR 7MY . . . C 2 13.483 0.175 38.357 1 74.95 ? CAR 7MY 1000 A 1 HETATM 10 N NBG 7MY . . . C 2 13.164 -1.168 38.06 1 76.25 ? NBG 7MY 1000 A 1 HETATM 11 C CAS 7MY . . . C 2 13.471 -1.398 36.654 1 60.91 ? CAS 7MY 1000 A 1 HETATM 12 C CAX 7MY . . . C 2 13.679 -2.89 36.262 1 45.72 ? CAX 7MY 1000 A 1 HETATM 13 C CAL 7MY . . . C 2 14.874 -3.266 35.67 1 52.86 ? CAL 7MY 1000 A 1 HETATM 14 C CAG 7MY . . . C 2 12.705 -3.856 36.464 1 51.91 ? CAG 7MY 1000 A 1 HETATM 15 C CAE 7MY . . . C 2 12.943 -5.189 36.09 1 52.4 ? CAE 7MY 1000 A 1 HETATM 16 C CAI 7MY . . . C 2 14.157 -5.549 35.516 1 50.85 ? CAI 7MY 1000 A 1 HETATM 17 C CAZ 7MY . . . C 2 15.134 -4.59 35.29 1 36.39 ? CAZ 7MY 1000 A 1 HETATM 18 N NAV 7MY . . . C 2 16.426 -4.886 34.692 1 40.1 ? NAV 7MY 1000 A 1 HETATM 19 C C2 7MY . . . C 2 17.062 -6.191 34.686 1 41.86 ? C2 7MY 1000 A 1 HETATM 20 C CBI 7MY . . . C 2 18.875 -10.085 34.657 1 46.23 ? CBI 7MY 1000 A 1 HETATM 21 C CAA 7MY . . . C 2 20.334 -10.32 35.152 1 51.12 ? CAA 7MY 1000 A 1 HETATM 22 C CAB 7MY . . . C 2 18.973 -10.792 33.309 1 51.67 ? CAB 7MY 1000 A 1 HETATM 23 C CAW 7MY . . . C 2 17.825 -10.721 35.564 1 47.99 ? CAW 7MY 1000 A 1 HETATM 24 O OAC 7MY . . . C 2 17.821 -12.038 35.953 1 67.62 ? OAC 7MY 1000 A 1 HETATM 25 N NBH 7MY . . . C 2 16.858 -9.801 35.94 1 40.38 ? NBH 7MY 1000 A 1 HETATM 26 C CBF 7MY . . . C 2 15.757 -10.107 36.771 1 58.91 ? CBF 7MY 1000 A 1 HETATM 27 C CAP 7MY . . . C 2 15.677 -9.002 37.683 1 62.84 ? CAP 7MY 1000 A 1 HETATM 28 C CAO 7MY . . . C 2 14.19 -8.629 37.811 1 61.35 ? CAO 7MY 1000 A 1 HETATM 29 C CBC 7MY . . . C 2 13.755 -9.163 36.431 1 59.67 ? CBC 7MY 1000 A 1 HETATM 30 C CBB 7MY . . . C 2 14.64 -9.98 35.903 1 62.13 ? CBB 7MY 1000 A 1 HETATM 31 C CAJ 7MY . . . C 2 14.394 -10.6 34.576 1 59.13 ? CAJ 7MY 1000 A 1 HETATM 32 C CAF 7MY . . . C 2 13.225 -10.334 33.88 1 49.48 ? CAF 7MY 1000 A 1 HETATM 33 C CAH 7MY . . . C 2 12.264 -9.449 34.466 1 54.01 ? CAH 7MY 1000 A 1 HETATM 34 C CAY 7MY . . . C 2 12.517 -8.874 35.706 1 55.39 ? CAY 7MY 1000 A 1 HETATM 35 O OAD 7MY . . . C 2 11.576 -8.005 36.267 1 68.06 ? OAD 7MY 1000 A 1 # _model_server_stats.io_time_ms 83 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 35 #