data_8WDT # _model_server_result.job_id gJb7pNEaUMjJUZUHrw8GWw _model_server_result.datetime_utc '2024-11-04 22:49:33' _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 8wdt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1000}' # _entry.id 8WDT # _exptl.entry_id 8WDT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 412.403 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2S,3S,4R,5R)-5-(6-amino-2-((E)-phenyldiazenyl)-9H-purin-9-yl)-N-ethyl-3,4-dihydroxytetrahydrofuran-2-carboxamide _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 94.79 _cell.angle_gamma 90 _cell.entry_id 8WDT _cell.length_a 372.64 _cell.length_b 52.52 _cell.length_c 63.4 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8WDT _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 4 _struct_asym.id D _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 99 A CYS 74 1_555 A SG CYS 171 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 102 A CYS 77 1_555 A SG CYS 191 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf4 A SG CYS 284 A CYS 259 1_555 A SG CYS 287 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 B SG CYS 23 B CYS 23 1_555 B SG CYS 87 B CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 B SG CYS 133 B CYS 133 1_555 B SG CYS 193 B CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 B SG CYS 213 B CYS 213 1_555 C SG CYS 136 C CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 C SG CYS 22 C CYS 22 1_555 C SG CYS 96 C CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf9 C SG CYS 148 C CYS 148 1_555 C SG CYS 203 C CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C18 H20 N8 O4' _chem_comp.formula_weight 412.403 _chem_comp.id WCH _chem_comp.mon_nstd_flag . _chem_comp.name (2S,3S,4R,5R)-5-(6-amino-2-((E)-phenyldiazenyl)-9H-purin-9-yl)-N-ethyl-3,4-dihydroxytetrahydrofuran-2-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 C15 C14 WCH sing 374 n n C15 C16 WCH sing 375 n n C15 O18 WCH sing 376 n n C17 C14 WCH sing 377 n n C17 N20 WCH sing 378 n n C17 O30 WCH doub 379 n n C22 C23 WCH doub 380 n y C22 C27 WCH sing 381 n y C22 N21 WCH sing 382 n n C24 C23 WCH sing 383 n y C24 C25 WCH doub 384 n y C26 C25 WCH sing 385 n y C26 C27 WCH doub 386 n y C28 C29 WCH sing 387 n n C28 N20 WCH sing 388 n n C02 C03 WCH doub 389 n y C02 N01 WCH sing 390 n y C02 N06 WCH sing 391 n y C03 C09 WCH sing 392 n y C03 N04 WCH sing 393 n y C05 N01 WCH sing 394 n y C05 N04 WCH doub 395 n y C07 N06 WCH doub 396 n y C07 N08 WCH sing 397 n y C09 N08 WCH doub 398 n y C09 N10 WCH sing 399 n n C12 C16 WCH sing 400 n n C12 N01 WCH sing 401 n n C12 O13 WCH sing 402 n n C14 O13 WCH sing 403 n n C16 O19 WCH sing 404 n n N11 N21 WCH doub 405 n n C07 N11 WCH sing 406 n n C15 H1 WCH sing 407 n n C24 H2 WCH sing 408 n n C26 H3 WCH sing 409 n n C28 H4 WCH sing 410 n n C28 H5 WCH sing 411 n n C05 H6 WCH sing 412 n n C12 H7 WCH sing 413 n n C14 H8 WCH sing 414 n n C16 H9 WCH sing 415 n n C23 H10 WCH sing 416 n n C25 H11 WCH sing 417 n n C27 H12 WCH sing 418 n n C29 H13 WCH sing 419 n n C29 H14 WCH sing 420 n n C29 H15 WCH sing 421 n n N10 H16 WCH sing 422 n n N10 H17 WCH sing 423 n n N20 H18 WCH sing 424 n n O18 H19 WCH sing 425 n n O19 H20 WCH sing 426 n n # _atom_sites.entry_id 8WDT _atom_sites.fract_transf_matrix[1][1] 0.002684 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000225 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01904 _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] 0.015828 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id D _pdbx_nonpoly_scheme.entity_id 4 _pdbx_nonpoly_scheme.mon_id WCH _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 1000 _pdbx_nonpoly_scheme.auth_seq_num 1000 _pdbx_nonpoly_scheme.pdb_mon_id WCH _pdbx_nonpoly_scheme.auth_mon_id LIG _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C15 WCH . . . D 4 -26.349 27.189 44.044 1 94.55 ? C15 WCH 1000 A 1 HETATM 2 C C17 WCH . . . D 4 -26.659 29.465 43.016 1 89.85 ? C17 WCH 1000 A 1 HETATM 3 C C22 WCH . . . D 4 -17.72 23.641 47.809 1 99.99 ? C22 WCH 1000 A 1 HETATM 4 C C24 WCH . . . D 4 -15.956 22.233 48.94 1 114.53 ? C24 WCH 1000 A 1 HETATM 5 C C26 WCH . . . D 4 -17.49 21.191 47.27 1 107.13 ? C26 WCH 1000 A 1 HETATM 6 C C28 WCH . . . D 4 -27.958 31.609 42.375 1 92.13 ? C28 WCH 1000 A 1 HETATM 7 C C02 WCH . . . D 4 -22.014 27.774 45.281 1 99.95 ? C02 WCH 1000 A 1 HETATM 8 C C03 WCH . . . D 4 -21.703 29.01 45.938 1 92.59 ? C03 WCH 1000 A 1 HETATM 9 C C05 WCH . . . D 4 -23.441 29.462 44.537 1 99.09 ? C05 WCH 1000 A 1 HETATM 10 C C07 WCH . . . D 4 -20.272 26.643 46.474 1 106.52 ? C07 WCH 1000 A 1 HETATM 11 C C09 WCH . . . D 4 -20.561 29.028 46.951 1 94.85 ? C09 WCH 1000 A 1 HETATM 12 C C12 WCH . . . D 4 -23.919 27.144 43.404 1 89.18 ? C12 WCH 1000 A 1 HETATM 13 C C14 WCH . . . D 4 -26.055 28.018 42.785 1 93.45 ? C14 WCH 1000 A 1 HETATM 14 C C16 WCH . . . D 4 -25.085 26.254 44.035 1 92.38 ? C16 WCH 1000 A 1 HETATM 15 C C23 WCH . . . D 4 -16.609 23.523 48.756 1 92.56 ? C23 WCH 1000 A 1 HETATM 16 C C25 WCH . . . D 4 -16.395 21.069 48.199 1 112.83 ? C25 WCH 1000 A 1 HETATM 17 C C27 WCH . . . D 4 -18.153 22.471 47.073 1 110.78 ? C27 WCH 1000 A 1 HETATM 18 C C29 WCH . . . D 4 -29.374 31.855 41.767 1 84.6 ? C29 WCH 1000 A 1 HETATM 19 N N01 WCH . . . D 4 -23.141 28.054 44.369 1 98.32 ? N01 WCH 1000 A 1 HETATM 20 N N04 WCH . . . D 4 -22.614 30.031 45.444 1 90.73 ? N04 WCH 1000 A 1 HETATM 21 N N06 WCH . . . D 4 -21.28 26.57 45.56 1 99.47 ? N06 WCH 1000 A 1 HETATM 22 N N08 WCH . . . D 4 -19.876 27.817 47.185 1 101.74 ? N08 WCH 1000 A 1 HETATM 23 N N10 WCH . . . D 4 -20.187 30.223 47.649 1 95.38 ? N10 WCH 1000 A 1 HETATM 24 N N11 WCH . . . D 4 -19.438 25.201 46.768 1 106.85 ? N11 WCH 1000 A 1 HETATM 25 N N20 WCH . . . D 4 -27.407 30.227 42.095 1 90.38 ? N20 WCH 1000 A 1 HETATM 26 N N21 WCH . . . D 4 -18.484 25.064 47.569 1 100.68 ? N21 WCH 1000 A 1 HETATM 27 O O13 WCH . . . D 4 -24.677 27.935 42.484 1 91.25 ? O13 WCH 1000 A 1 HETATM 28 O O18 WCH . . . D 4 -27.574 26.542 43.896 1 99.43 ? O18 WCH 1000 A 1 HETATM 29 O O19 WCH . . . D 4 -25.372 25.183 43.204 1 97.34 ? O19 WCH 1000 A 1 HETATM 30 O O30 WCH . . . D 4 -26.428 29.932 44.133 1 90.19 ? O30 WCH 1000 A 1 # _model_server_stats.io_time_ms 83 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 30 #