data_8WZK # _model_server_result.job_id frg27BWt8MjUR_FrrGCSGA _model_server_result.datetime_utc '2025-07-06 14:26:32' _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 8wzk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":3002}' # _entry.id 8WZK # _exptl.entry_id 8WZK _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 745.421 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 4 _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 8WZK _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8WZK _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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 _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 ? _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 ? 3 F N N ? 3 H N N ? 3 J N N ? 3 L 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 metalc ? metalc1 A OH TYR 358 B TYR 358 1_555 E FE HEM . B HEM 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? metalc ? metalc2 B OH TYR 358 A TYR 358 1_555 G FE HEM . A HEM 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? metalc ? metalc3 C OH TYR 358 C TYR 358 1_555 I FE HEM . C HEM 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? metalc ? metalc4 D OH TYR 358 D TYR 358 1_555 K FE HEM . D HEM 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? # _chem_comp.formula 'C21 H30 N7 O17 P3' _chem_comp.formula_weight 745.421 _chem_comp.id NDP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 PA O1A NDP doub 317 n n PA O2A NDP sing 318 n n PA O5B NDP sing 319 n n PA O3 NDP sing 320 n n O2A HOA2 NDP sing 321 n n O5B C5B NDP sing 322 n n C5B C4B NDP sing 323 n n C5B H51A NDP sing 324 n n C5B H52A NDP sing 325 n n C4B O4B NDP sing 326 n n C4B C3B NDP sing 327 n n C4B H4B NDP sing 328 n n O4B C1B NDP sing 329 n n C3B O3B NDP sing 330 n n C3B C2B NDP sing 331 n n C3B H3B NDP sing 332 n n O3B HO3A NDP sing 333 n n C2B O2B NDP sing 334 n n C2B C1B NDP sing 335 n n C2B H2B NDP sing 336 n n O2B P2B NDP sing 337 n n C1B N9A NDP sing 338 n n C1B H1B NDP sing 339 n n N9A C8A NDP sing 340 n y N9A C4A NDP sing 341 n y C8A N7A NDP doub 342 n y C8A H8A NDP sing 343 n n N7A C5A NDP sing 344 n y C5A C6A NDP sing 345 n y C5A C4A NDP doub 346 n y C6A N6A NDP sing 347 n n C6A N1A NDP doub 348 n y N6A H61A NDP sing 349 n n N6A H62A NDP sing 350 n n N1A C2A NDP sing 351 n y C2A N3A NDP doub 352 n y C2A H2A NDP sing 353 n n N3A C4A NDP sing 354 n y O3 PN NDP sing 355 n n PN O1N NDP doub 356 n n PN O2N NDP sing 357 n n PN O5D NDP sing 358 n n O2N H21N NDP sing 359 n n O5D C5D NDP sing 360 n n C5D C4D NDP sing 361 n n C5D H51N NDP sing 362 n n C5D H52N NDP sing 363 n n C4D O4D NDP sing 364 n n C4D C3D NDP sing 365 n n C4D H4D NDP sing 366 n n O4D C1D NDP sing 367 n n C3D O3D NDP sing 368 n n C3D C2D NDP sing 369 n n C3D H3D NDP sing 370 n n O3D HO3N NDP sing 371 n n C2D O2D NDP sing 372 n n C2D C1D NDP sing 373 n n C2D H2D NDP sing 374 n n O2D HO2N NDP sing 375 n n C1D N1N NDP sing 376 n n C1D H1D NDP sing 377 n n N1N C2N NDP sing 378 n n N1N C6N NDP sing 379 n n C2N C3N NDP doub 380 n n C2N H2N NDP sing 381 n n C3N C7N NDP sing 382 n n C3N C4N NDP sing 383 n n C7N O7N NDP doub 384 n n C7N N7N NDP sing 385 n n N7N H71N NDP sing 386 n n N7N H72N NDP sing 387 n n C4N C5N NDP sing 388 n n C4N H41N NDP sing 389 n n C4N H42N NDP sing 390 n n C5N C6N NDP doub 391 n n C5N H5N NDP sing 392 n n C6N H6N NDP sing 393 n n P2B O1X NDP doub 394 n n P2B O2X NDP sing 395 n n P2B O3X NDP sing 396 n n O2X HOP2 NDP sing 397 n n O3X HOP3 NDP sing 398 n n # _atom_sites.entry_id 8WZK _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 E 2 HEM B 1 3001 3001 HEM HEM . F 3 NDP B 1 3002 4001 NDP NDP . G 2 HEM A 1 3001 3001 HEM HEM . H 3 NDP A 1 3002 4001 NDP NDP . I 2 HEM C 1 3001 3001 HEM HEM . J 3 NDP C 1 3002 4001 NDP NDP . K 2 HEM D 1 3001 3001 HEM HEM . L 3 NDP D 1 3002 4001 NDP NDP . # 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 P PA NDP . . . F 3 103.599 170.826 147.644 1 98.2 ? PA NDP 3002 B 1 HETATM 2 O O1A NDP . . . F 3 103.634 172.318 147.552 1 122.13 ? O1A NDP 3002 B 1 HETATM 3 O O2A NDP . . . F 3 102.704 170.217 148.668 1 103.49 ? O2A NDP 3002 B 1 HETATM 4 O O5B NDP . . . F 3 105.089 170.28 147.846 1 113.94 ? O5B NDP 3002 B 1 HETATM 5 C C5B NDP . . . F 3 106.223 170.888 147.158 1 117.45 ? C5B NDP 3002 B 1 HETATM 6 C C4B NDP . . . F 3 107.388 169.926 147.146 1 109.29 ? C4B NDP 3002 B 1 HETATM 7 O O4B NDP . . . F 3 108.282 170.252 146.046 1 88.06 ? O4B NDP 3002 B 1 HETATM 8 C C3B NDP . . . F 3 108.251 169.94 148.417 1 98.97 ? C3B NDP 3002 B 1 HETATM 9 O O3B NDP . . . F 3 108.563 168.621 148.847 1 109.2 ? O3B NDP 3002 B 1 HETATM 10 C C2B NDP . . . F 3 109.489 170.727 147.986 1 97.38 ? C2B NDP 3002 B 1 HETATM 11 O O2B NDP . . . F 3 110.677 170.339 148.698 1 113.25 ? O2B NDP 3002 B 1 HETATM 12 C C1B NDP . . . F 3 109.604 170.331 146.524 1 87.05 ? C1B NDP 3002 B 1 HETATM 13 N N9A NDP . . . F 3 110.359 171.28 145.719 1 100.4 ? N9A NDP 3002 B 1 HETATM 14 C C8A NDP . . . F 3 110.359 172.65 145.827 1 103.82 ? C8A NDP 3002 B 1 HETATM 15 N N7A NDP . . . F 3 111.138 173.242 144.957 1 101.83 ? N7A NDP 3002 B 1 HETATM 16 C C5A NDP . . . F 3 111.713 172.201 144.244 1 104.79 ? C5A NDP 3002 B 1 HETATM 17 C C6A NDP . . . F 3 112.659 172.173 143.197 1 105.69 ? C6A NDP 3002 B 1 HETATM 18 N N6A NDP . . . F 3 113.203 173.257 142.657 1 115.32 ? N6A NDP 3002 B 1 HETATM 19 N N1A NDP . . . F 3 113.043 170.96 142.732 1 110.97 ? N1A NDP 3002 B 1 HETATM 20 C C2A NDP . . . F 3 112.479 169.867 143.27 1 102.02 ? C2A NDP 3002 B 1 HETATM 21 N N3A NDP . . . F 3 111.579 169.77 144.248 1 103.26 ? N3A NDP 3002 B 1 HETATM 22 C C4A NDP . . . F 3 111.231 170.986 144.701 1 107.33 ? C4A NDP 3002 B 1 HETATM 23 O O3 NDP . . . F 3 103.246 170.232 146.197 1 99.68 ? O3 NDP 3002 B 1 HETATM 24 P PN NDP . . . F 3 102.16 169.14 145.773 1 99.61 ? PN NDP 3002 B 1 HETATM 25 O O1N NDP . . . F 3 102.278 167.927 146.637 1 105.46 ? O1N NDP 3002 B 1 HETATM 26 O O2N NDP . . . F 3 100.816 169.788 145.725 1 125.47 ? O2N NDP 3002 B 1 HETATM 27 O O5D NDP . . . F 3 102.636 168.798 144.287 1 101.2 ? O5D NDP 3002 B 1 HETATM 28 C C5D NDP . . . F 3 102.986 169.861 143.374 1 91.97 ? C5D NDP 3002 B 1 HETATM 29 C C4D NDP . . . F 3 104.193 169.449 142.571 1 106.99 ? C4D NDP 3002 B 1 HETATM 30 O O4D NDP . . . F 3 105.343 169.408 143.45 1 110.91 ? O4D NDP 3002 B 1 HETATM 31 C C3D NDP . . . F 3 104.159 168.056 141.927 1 103.95 ? C3D NDP 3002 B 1 HETATM 32 O O3D NDP . . . F 3 103.565 168.144 140.643 1 97.57 ? O3D NDP 3002 B 1 HETATM 33 C C2D NDP . . . F 3 105.656 167.702 141.839 1 96.52 ? C2D NDP 3002 B 1 HETATM 34 O O2D NDP . . . F 3 106.206 168.063 140.583 1 82.58 ? O2D NDP 3002 B 1 HETATM 35 C C1D NDP . . . F 3 106.326 168.513 142.939 1 95.49 ? C1D NDP 3002 B 1 HETATM 36 N N1N NDP . . . F 3 106.825 167.642 144.055 1 100.87 ? N1N NDP 3002 B 1 HETATM 37 C C2N NDP . . . F 3 105.947 166.909 144.818 1 90.07 ? C2N NDP 3002 B 1 HETATM 38 C C3N NDP . . . F 3 106.377 166.046 145.821 1 107.01 ? C3N NDP 3002 B 1 HETATM 39 C C7N NDP . . . F 3 105.38 165.135 146.458 1 108.89 ? C7N NDP 3002 B 1 HETATM 40 O O7N NDP . . . F 3 104.186 165.217 146.158 1 98.34 ? O7N NDP 3002 B 1 HETATM 41 N N7N NDP . . . F 3 105.805 164.222 147.316 1 100.6 ? N7N NDP 3002 B 1 HETATM 42 C C4N NDP . . . F 3 107.84 166.005 146.157 1 94.07 ? C4N NDP 3002 B 1 HETATM 43 C C5N NDP . . . F 3 108.667 166.97 145.4 1 95.16 ? C5N NDP 3002 B 1 HETATM 44 C C6N NDP . . . F 3 108.184 167.629 144.362 1 104.73 ? C6N NDP 3002 B 1 HETATM 45 P P2B NDP . . . F 3 110.763 170.907 150.214 1 121.44 ? P2B NDP 3002 B 1 HETATM 46 O O1X NDP . . . F 3 110.368 172.377 150.194 1 139.48 ? O1X NDP 3002 B 1 HETATM 47 O O2X NDP . . . F 3 112.185 170.736 150.665 1 129.87 ? O2X NDP 3002 B 1 HETATM 48 O O3X NDP . . . F 3 109.811 170.077 151.047 1 126.05 ? O3X NDP 3002 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 240 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #