data_4DJH # _model_server_result.job_id gWYl3RnDkHe5QVbLdDXcZA _model_server_result.datetime_utc '2024-11-05 06:42:40' _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 4djh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1300}' # _entry.id 4DJH # _exptl.entry_id 4DJH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 465.628 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3R)-7-hydroxy-N-{(2S)-1-[(3R,4R)-4-(3-hydroxyphenyl)-3,4-dimethylpiperidin-1-yl]-3-methylbutan-2-yl}-1,2,3,4-tetrahydroisoquinoline-3-carboxamide _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 90 _cell.angle_gamma 90 _cell.entry_id 4DJH _cell.length_a 54.896 _cell.length_b 147.297 _cell.length_c 205.288 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DJH _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # 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 dimeric 2 software_defined_assembly 1 PISA dimeric 2 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,B,C,D,E,F,G,H,I,J,K 1 1 B,E,F,G,H,I,K 2 1 A,C,D,J 2 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_545 -x,y-1/2,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 -73.6485 102.644 # 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 E N 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 94 A CYS 131 1_555 A SG CYS 173 A CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 B SG CYS 94 B CYS 131 1_555 B SG CYS 173 B CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A C GLY 224 A GLY 261 1_555 A N ASN 225 A ASN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A N ARG 385 A ARG 263 1_555 A C TYR 384 A TYR 1161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 B C GLY 224 B GLY 261 1_555 B N ASN 225 B ASN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale4 B N ARG 385 B ARG 263 1_555 B C TYR 384 B TYR 1161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? # _chem_comp.formula 'C28 H39 N3 O3' _chem_comp.formula_weight 465.628 _chem_comp.id JDC _chem_comp.mon_nstd_flag . _chem_comp.name (3R)-7-hydroxy-N-{(2S)-1-[(3R,4R)-4-(3-hydroxyphenyl)-3,4-dimethylpiperidin-1-yl]-3-methylbutan-2-yl}-1,2,3,4-tetrahydroisoquinoline-3-carboxamide _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 C3B C3A JDC sing 193 n n C3A C3D JDC sing 194 n n C3A C2A JDC sing 195 n n C4D C2A JDC sing 196 n n C4D N11 JDC sing 197 n n C2A N2A JDC sing 198 n n N2A C1A JDC sing 199 n n C61 N11 JDC sing 200 n n C61 C51 JDC sing 201 n n N11 C21 JDC sing 202 n n C1A C3 JDC sing 203 n n C1A O1 JDC doub 204 n n C3 C4 JDC sing 205 n n C3 N2 JDC sing 206 n n C4 C4A JDC sing 207 n n C5 C4A JDC doub 208 n y C5 C6 JDC sing 209 n y C4A C8A JDC sing 210 n y C21 C31 JDC sing 211 n n C6 C7 JDC doub 212 n y C51 C41 JDC sing 213 n n C8A C1 JDC sing 214 n n C8A C8 JDC doub 215 n y N2 C1 JDC sing 216 n n C7 C8 JDC sing 217 n y C7 O7 JDC sing 218 n n C4E C41 JDC sing 219 n n C41 C31 JDC sing 220 n n C41 C1C JDC sing 221 n n C31 C34 JDC sing 222 n n C1C C6C JDC doub 223 n y C1C C2C JDC sing 224 n y C6C C5C JDC sing 225 n y C2C C3C JDC doub 226 n y C5C C4C JDC doub 227 n y C3C C4C JDC sing 228 n y C3C O3C JDC sing 229 n n C1 H1 JDC sing 230 n n C1 H2 JDC sing 231 n n N2 H3 JDC sing 232 n n C3 H5 JDC sing 233 n n C4 H6 JDC sing 234 n n C4 H7 JDC sing 235 n n C5 H8 JDC sing 236 n n C6 H9 JDC sing 237 n n O7 H10 JDC sing 238 n n C8 H11 JDC sing 239 n n N2A H12 JDC sing 240 n n C2A H13 JDC sing 241 n n C3A H14 JDC sing 242 n n C3D H15 JDC sing 243 n n C3D H16 JDC sing 244 n n C3D H17 JDC sing 245 n n C3B H18 JDC sing 246 n n C3B H19 JDC sing 247 n n C3B H20 JDC sing 248 n n C4D H21 JDC sing 249 n n C4D H22 JDC sing 250 n n C21 H24 JDC sing 251 n n C21 H25 JDC sing 252 n n C31 H26 JDC sing 253 n n C34 H27 JDC sing 254 n n C34 H28 JDC sing 255 n n C34 H29 JDC sing 256 n n C51 H30 JDC sing 257 n n C51 H31 JDC sing 258 n n C61 H32 JDC sing 259 n n C61 H33 JDC sing 260 n n C4E H34 JDC sing 261 n n C4E H35 JDC sing 262 n n C4E H36 JDC sing 263 n n C2C H37 JDC sing 264 n n O3C H38 JDC sing 265 n n C4C H39 JDC sing 266 n n C5C H40 JDC sing 267 n n C6C H41 JDC sing 268 n n # _atom_sites.entry_id 4DJH _atom_sites.fract_transf_matrix[1][1] 0.018216 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006789 _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] 0.004871 _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 JDC A 1 1300 1300 JDC JDC . D 3 CIT A 1 1301 1301 CIT CIT . E 2 JDC B 1 1300 1300 JDC JDC . F 4 OLC B 1 1302 1302 OLC OLC . G 4 OLC B 1 1303 1303 OLC OLC . H 5 PEG B 1 1304 1304 PEG PEG . I 5 PEG B 1 1305 1305 PEG PEG . J 6 HOH A 1 1303 1303 HOH HOH . J 6 HOH A 2 1304 1304 HOH HOH . J 6 HOH A 3 1305 1305 HOH HOH . J 6 HOH A 4 1306 1306 HOH HOH . J 6 HOH A 5 1307 1307 HOH HOH . J 6 HOH A 6 1308 1308 HOH HOH . J 6 HOH A 7 1309 1309 HOH HOH . J 6 HOH A 8 1310 1310 HOH HOH . J 6 HOH A 9 1311 1311 HOH HOH . J 6 HOH A 10 1312 1312 HOH HOH . J 6 HOH A 11 1313 1313 HOH HOH . K 6 HOH B 1 1306 1306 HOH HOH . K 6 HOH B 2 1307 1307 HOH HOH . K 6 HOH B 3 1308 1308 HOH HOH . K 6 HOH B 4 1309 1309 HOH HOH . K 6 HOH B 5 1310 1310 HOH HOH . K 6 HOH B 6 1311 1311 HOH HOH . K 6 HOH B 7 1312 1312 HOH HOH . K 6 HOH B 8 1313 1313 HOH HOH . K 6 HOH B 9 1314 1314 HOH HOH . K 6 HOH B 10 1315 1315 HOH HOH . K 6 HOH B 11 1316 1316 HOH HOH . K 6 HOH B 12 1318 1318 HOH HOH . K 6 HOH B 13 1319 1319 HOH HOH . K 6 HOH B 14 1320 1320 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 C1 JDC . . . C 2 3.212 -20.41 59.668 1 48.87 ? C1 JDC 1300 A 1 HETATM 2 N N2 JDC . . . C 2 2.925 -21.788 59.558 1 62.55 ? N2 JDC 1300 A 1 HETATM 3 C C3 JDC . . . C 2 2.2 -22.081 58.366 1 59.43 ? C3 JDC 1300 A 1 HETATM 4 C C4 JDC . . . C 2 0.834 -21.417 58.395 1 43.96 ? C4 JDC 1300 A 1 HETATM 5 C C4A JDC . . . C 2 0.941 -19.983 58.845 1 53.74 ? C4A JDC 1300 A 1 HETATM 6 C C5 JDC . . . C 2 -0.162 -19.056 58.639 1 58.61 ? C5 JDC 1300 A 1 HETATM 7 C C6 JDC . . . C 2 -0.05 -17.705 59.061 1 64.53 ? C6 JDC 1300 A 1 HETATM 8 C C7 JDC . . . C 2 1.111 -17.258 59.67 1 65.23 ? C7 JDC 1300 A 1 HETATM 9 O O7 JDC . . . C 2 1.231 -15.978 60.074 1 69.41 ? O7 JDC 1300 A 1 HETATM 10 C C8 JDC . . . C 2 2.166 -18.147 59.863 1 64.82 ? C8 JDC 1300 A 1 HETATM 11 C C8A JDC . . . C 2 2.05 -19.54 59.431 1 48.05 ? C8A JDC 1300 A 1 HETATM 12 C C1A JDC . . . C 2 2.111 -23.598 58.19 1 61.98 ? C1A JDC 1300 A 1 HETATM 13 O O1 JDC . . . C 2 1.727 -24.318 59.12 1 64.62 ? O1 JDC 1300 A 1 HETATM 14 N N2A JDC . . . C 2 2.503 -24.178 56.921 1 56.3 ? N2A JDC 1300 A 1 HETATM 15 C C2A JDC . . . C 2 2.445 -25.585 56.711 1 56.73 ? C2A JDC 1300 A 1 HETATM 16 C C3A JDC . . . C 2 1.614 -25.743 55.429 1 70.31 ? C3A JDC 1300 A 1 HETATM 17 C C3D JDC . . . C 2 0.193 -25.053 55.545 1 54.27 ? C3D JDC 1300 A 1 HETATM 18 C C3B JDC . . . C 2 1.576 -27.107 54.864 1 68.81 ? C3B JDC 1300 A 1 HETATM 19 C C4D JDC . . . C 2 3.811 -26.223 56.565 1 47.06 ? C4D JDC 1300 A 1 HETATM 20 N N11 JDC . . . C 2 4.678 -26.293 57.835 1 55.76 ? N11 JDC 1300 A 1 HETATM 21 C C21 JDC . . . C 2 4.043 -27.036 58.903 1 56.86 ? C21 JDC 1300 A 1 HETATM 22 C C31 JDC . . . C 2 4.679 -26.846 60.229 1 62.8 ? C31 JDC 1300 A 1 HETATM 23 C C34 JDC . . . C 2 4.312 -25.401 60.739 1 78.38 ? C34 JDC 1300 A 1 HETATM 24 C C41 JDC . . . C 2 6.129 -27.032 60.202 1 69.4 ? C41 JDC 1300 A 1 HETATM 25 C C51 JDC . . . C 2 6.752 -26.272 59.152 1 63.71 ? C51 JDC 1300 A 1 HETATM 26 C C61 JDC . . . C 2 6.115 -26.461 57.818 1 49.91 ? C61 JDC 1300 A 1 HETATM 27 C C4E JDC . . . C 2 6.423 -28.478 59.844 1 48.63 ? C4E JDC 1300 A 1 HETATM 28 C C1C JDC . . . C 2 6.721 -26.803 61.593 1 72.78 ? C1C JDC 1300 A 1 HETATM 29 C C2C JDC . . . C 2 6.111 -27.382 62.709 1 79.76 ? C2C JDC 1300 A 1 HETATM 30 C C3C JDC . . . C 2 6.658 -27.175 63.992 1 84.06 ? C3C JDC 1300 A 1 HETATM 31 O O3C JDC . . . C 2 6.021 -27.774 65.151 1 90.73 ? O3C JDC 1300 A 1 HETATM 32 C C4C JDC . . . C 2 7.839 -26.372 64.148 1 71.44 ? C4C JDC 1300 A 1 HETATM 33 C C5C JDC . . . C 2 8.441 -25.801 63.038 1 74.71 ? C5C JDC 1300 A 1 HETATM 34 C C6C JDC . . . C 2 7.899 -26.005 61.754 1 71.41 ? C6C JDC 1300 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 34 #