data_8CU6 # _model_server_result.job_id jwkhjq8fA4f1yyz0Fjb9MA _model_server_result.datetime_utc '2025-04-04 02:44:04' _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 8cu6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1208}' # _entry.id 8CU6 # _exptl.entry_id 8CU6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 399.467 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R,3R,4R)-2-[(8P)-6-amino-2-(hex-1-yn-1-yl)-8-(thiophen-2-yl)-9H-purin-9-yl]oxolane-3,4-diol _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 90 _cell.entry_id 8CU6 _cell.length_a 39.229 _cell.length_b 179.055 _cell.length_c 140.01 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CU6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z _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 5 _struct_asym.id I _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 96 A CYS 71 1_555 A SG CYS 184 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 99 A CYS 74 1_555 A SG CYS 171 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 102 A CYS 77 1_555 A SG CYS 191 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 A SG CYS 380 A CYS 259 1_555 A SG CYS 383 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? # _chem_comp.formula 'C19 H21 N5 O3 S' _chem_comp.formula_weight 399.467 _chem_comp.id LJX _chem_comp.mon_nstd_flag . _chem_comp.name (2R,3R,4R)-2-[(8P)-6-amino-2-(hex-1-yn-1-yl)-8-(thiophen-2-yl)-9H-purin-9-yl]oxolane-3,4-diol _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 C15 C16 LJX sing 271 n n C15 C14 LJX sing 272 n n C14 C13 LJX sing 273 n n C13 C12 LJX sing 274 n n O3' C3' LJX sing 275 n n C12 C11 LJX trip 276 n n C4' C3' LJX sing 277 n n C4' O4' LJX sing 278 n n C3' C2' LJX sing 279 n n C11 C2 LJX sing 280 n n C2 N3 LJX doub 281 n y C2 N1 LJX sing 282 n y O4' C1' LJX sing 283 n n N3 C4 LJX sing 284 n y N1 C6 LJX doub 285 n y C2' O2' LJX sing 286 n n C2' C1' LJX sing 287 n n C4 N9 LJX sing 288 n y C4 C5 LJX doub 289 n y C1' N9 LJX sing 290 n n C6 C5 LJX sing 291 n y C6 N6 LJX sing 292 n n N9 C8 LJX sing 293 n y C5 N7 LJX sing 294 n y C8 N7 LJX doub 295 n y C8 C9 LJX sing 296 n n S1 C9 LJX sing 297 n y S1 C1 LJX sing 298 n y C9 C7 LJX doub 299 n y C1 C3 LJX doub 300 n y C7 C3 LJX sing 301 n y C1 H1 LJX sing 302 n n C13 H2 LJX sing 303 n n C13 H3 LJX sing 304 n n C14 H4 LJX sing 305 n n C14 H5 LJX sing 306 n n C15 H6 LJX sing 307 n n C15 H7 LJX sing 308 n n C16 H8 LJX sing 309 n n C16 H9 LJX sing 310 n n C16 H10 LJX sing 311 n n C3 H11 LJX sing 312 n n C7 H12 LJX sing 313 n n C2' H13 LJX sing 314 n n C4' H14 LJX sing 315 n n C4' H15 LJX sing 316 n n C3' H16 LJX sing 317 n n C1' H17 LJX sing 318 n n N6 H18 LJX sing 319 n n N6 H19 LJX sing 320 n n O2' H20 LJX sing 321 n n O3' H21 LJX sing 322 n n # _atom_sites.entry_id 8CU6 _atom_sites.fract_transf_matrix[1][1] 0.025491 _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] 0.005585 _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] 0.007142 _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 OLA A 1 1201 502 OLA OLA . C 2 OLA A 1 1202 503 OLA OLA . D 2 OLA A 1 1203 504 OLA OLA . E 2 OLA A 1 1204 506 OLA OLA . F 3 OLC A 1 1205 507 OLC OLC . G 2 OLA A 1 1206 509 OLA OLA . H 4 PEG A 1 1207 510 PEG PEG . I 5 LJX A 1 1208 2300 LJX LJX . J 6 CLR A 1 1209 2402 CLR CLR . K 6 CLR A 1 1210 2403 CLR CLR . L 6 CLR A 1 1211 2404 CLR CLR . M 2 OLA A 1 1212 2411 OLA OLA . N 2 OLA A 1 1213 2415 OLA OLA . O 2 OLA A 1 1214 2420 OLA OLA . P 3 OLC A 1 1215 2432 OLC OLC . Q 3 OLC A 1 1216 2433 OLC OLC . R 2 OLA A 1 1217 2438 OLA OLA . S 2 OLA A 1 1218 2440 OLA OLA . T 2 OLA A 1 1219 2441 OLA OLA . U 2 OLA A 1 1220 2448 OLA OLA . V 2 OLA A 1 1221 2449 OLA OLA . W 2 OLA A 1 1222 2450 OLA OLA . X 2 OLA A 1 1223 2451 OLA OLA . Y 2 OLA A 1 1224 2662 OLA OLA . Z 7 HOH A 1 1301 1 HOH HOH . Z 7 HOH A 2 1302 2520 HOH HOH . Z 7 HOH A 3 1303 3 HOH HOH . Z 7 HOH A 4 1304 2660 HOH HOH . Z 7 HOH A 5 1305 9 HOH HOH . Z 7 HOH A 6 1306 2489 HOH HOH . Z 7 HOH A 7 1307 8 HOH HOH . Z 7 HOH A 8 1308 2641 HOH HOH . Z 7 HOH A 9 1309 2657 HOH HOH . Z 7 HOH A 10 1310 2655 HOH HOH . Z 7 HOH A 11 1311 2485 HOH HOH . Z 7 HOH A 12 1312 2487 HOH HOH . Z 7 HOH A 13 1313 4 HOH HOH . Z 7 HOH A 14 1314 7 HOH HOH . Z 7 HOH A 15 1315 2659 HOH HOH . Z 7 HOH A 16 1316 2490 HOH HOH . Z 7 HOH A 17 1317 2 HOH HOH . Z 7 HOH A 18 1318 2502 HOH HOH . Z 7 HOH A 19 1319 12 HOH HOH . Z 7 HOH A 20 1320 2510 HOH HOH . Z 7 HOH A 21 1321 2526 HOH HOH . Z 7 HOH A 22 1322 5 HOH HOH . Z 7 HOH A 23 1323 14 HOH HOH . Z 7 HOH A 24 1324 2557 HOH HOH . Z 7 HOH A 25 1325 2482 HOH HOH . Z 7 HOH A 26 1326 2507 HOH HOH . Z 7 HOH A 27 1327 6 HOH HOH . Z 7 HOH A 28 1328 2501 HOH HOH . Z 7 HOH A 29 1329 2495 HOH HOH . Z 7 HOH A 30 1330 2559 HOH HOH . Z 7 HOH A 31 1331 10 HOH HOH . Z 7 HOH A 32 1332 2524 HOH HOH . Z 7 HOH A 33 1333 2477 HOH HOH . Z 7 HOH A 34 1334 13 HOH HOH . Z 7 HOH A 35 1335 2650 HOH HOH . Z 7 HOH A 36 1336 2658 HOH HOH . Z 7 HOH A 37 1337 2551 HOH HOH . Z 7 HOH A 38 1338 11 HOH HOH . Z 7 HOH A 39 1339 2523 HOH HOH . Z 7 HOH A 40 1340 2651 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 LJX . . . I 5 -18.775 1.232 19.722 1 31.62 ? C1 LJX 1208 A 1 HETATM 2 C C11 LJX . . . I 5 -22.484 9.397 15.894 1 37.81 ? C11 LJX 1208 A 1 HETATM 3 C C12 LJX . . . I 5 -23.255 10.103 15.312 1 40.32 ? C12 LJX 1208 A 1 HETATM 4 C C13 LJX . . . I 5 -24.186 10.961 14.573 1 40.55 ? C13 LJX 1208 A 1 HETATM 5 C C14 LJX . . . I 5 -23.428 11.746 13.501 1 38.5 ? C14 LJX 1208 A 1 HETATM 6 C C15 LJX . . . I 5 -22.572 10.811 12.644 1 41.54 ? C15 LJX 1208 A 1 HETATM 7 C C16 LJX . . . I 5 -21.132 10.737 13.153 1 40.75 ? C16 LJX 1208 A 1 HETATM 8 C C2 LJX . . . I 5 -21.573 8.543 16.578 1 34.44 ? C2 LJX 1208 A 1 HETATM 9 C C3 LJX . . . I 5 -20.046 1.326 20.144 1 31.9 ? C3 LJX 1208 A 1 HETATM 10 C C4 LJX . . . I 5 -21.154 6.395 17.473 1 35.02 ? C4 LJX 1208 A 1 HETATM 11 C C5 LJX . . . I 5 -19.927 6.811 17.876 1 32.47 ? C5 LJX 1208 A 1 HETATM 12 C C6 LJX . . . I 5 -19.514 8.123 17.62 1 35.28 ? C6 LJX 1208 A 1 HETATM 13 C C7 LJX . . . I 5 -20.691 2.541 19.767 1 31.56 ? C7 LJX 1208 A 1 HETATM 14 C C8 LJX . . . I 5 -20.169 4.707 18.472 1 33.61 ? C8 LJX 1208 A 1 HETATM 15 C C9 LJX . . . I 5 -19.872 3.375 19.039 1 30.47 ? C9 LJX 1208 A 1 HETATM 16 N N1 LJX . . . I 5 -20.348 8.978 16.971 1 33.68 ? N1 LJX 1208 A 1 HETATM 17 N N3 LJX . . . I 5 -21.963 7.272 16.826 1 36.62 ? N3 LJX 1208 A 1 HETATM 18 S S1 LJX . . . I 5 -18.345 2.627 18.854 1 32.96 ? S1 LJX 1208 A 1 HETATM 19 C C2' LJX . . . I 5 -23.735 4.985 17.111 1 42.57 ? C2' LJX 1208 A 1 HETATM 20 C C4' LJX . . . I 5 -22.968 3.554 15.435 1 43.74 ? C4' LJX 1208 A 1 HETATM 21 C C3' LJX . . . I 5 -23.488 4.969 15.612 1 44.45 ? C3' LJX 1208 A 1 HETATM 22 C C1' LJX . . . I 5 -22.494 4.232 17.606 1 36.42 ? C1' LJX 1208 A 1 HETATM 23 N N9 LJX . . . I 5 -21.315 5.091 17.839 1 33.9 ? N9 LJX 1208 A 1 HETATM 24 N N7 LJX . . . I 5 -19.317 5.75 18.5 1 31.07 ? N7 LJX 1208 A 1 HETATM 25 N N6 LJX . . . I 5 -18.306 8.537 18.016 1 34.93 ? N6 LJX 1208 A 1 HETATM 26 O O2' LJX . . . I 5 -24.91 4.227 17.357 1 49.89 ? O2' LJX 1208 A 1 HETATM 27 O O4' LJX . . . I 5 -22.175 3.27 16.594 1 38.11 ? O4' LJX 1208 A 1 HETATM 28 O O3' LJX . . . I 5 -24.685 5.228 14.897 1 45.46 ? O3' LJX 1208 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 28 #