data_8UPN # _model_server_result.job_id maLaV2LGx_BZVKpW0PCR9g _model_server_result.datetime_utc '2025-02-26 19:55:25' _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 8upn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 8UPN # _exptl.entry_id 8UPN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 8UPN _cell.length_a 130.72 _cell.length_b 130.72 _cell.length_c 130.72 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8UPN _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall 'I 2 2 3' _symmetry.space_group_name_H-M 'I 2 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,E,F,G _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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 'point symmetry operation' ? ? 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 metalc ? metalc1 A OD1 ASP 192 A ASP 192 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc2 A OD1 ASP 192 A ASP 192 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.859 ? metalc ? metalc3 A OD2 ASP 192 A ASP 192 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.831 ? metalc ? metalc4 A OE2 GLU 196 A GLU 196 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.87 ? metalc ? metalc5 A OE1 GLU 232 A GLU 232 1_555 B MG MG . A MG 401 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc6 B MG MG . A MG 401 1_555 F O07 WXU . A WXU 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.974 ? metalc ? metalc7 B MG MG . A MG 401 1_555 G O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc8 B MG MG . A MG 401 1_555 G O HOH . A HOH 504 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.966 ? metalc ? metalc9 C MG MG . A MG 402 1_555 F O09 WXU . A WXU 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.836 ? metalc ? metalc10 C MG MG . A MG 402 1_555 F O01 WXU . A WXU 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc11 C MG MG . A MG 402 1_555 G O HOH . A HOH 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc12 C MG MG . A MG 402 1_555 G O HOH . A HOH 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.952 ? # _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 237 n n PA O2A NDP sing 238 n n PA O5B NDP sing 239 n n PA O3 NDP sing 240 n n O2A HOA2 NDP sing 241 n n O5B C5B NDP sing 242 n n C5B C4B NDP sing 243 n n C5B H51A NDP sing 244 n n C5B H52A NDP sing 245 n n C4B O4B NDP sing 246 n n C4B C3B NDP sing 247 n n C4B H4B NDP sing 248 n n O4B C1B NDP sing 249 n n C3B O3B NDP sing 250 n n C3B C2B NDP sing 251 n n C3B H3B NDP sing 252 n n O3B HO3A NDP sing 253 n n C2B O2B NDP sing 254 n n C2B C1B NDP sing 255 n n C2B H2B NDP sing 256 n n O2B P2B NDP sing 257 n n C1B N9A NDP sing 258 n n C1B H1B NDP sing 259 n n N9A C8A NDP sing 260 n y N9A C4A NDP sing 261 n y C8A N7A NDP doub 262 n y C8A H8A NDP sing 263 n n N7A C5A NDP sing 264 n y C5A C6A NDP sing 265 n y C5A C4A NDP doub 266 n y C6A N6A NDP sing 267 n n C6A N1A NDP doub 268 n y N6A H61A NDP sing 269 n n N6A H62A NDP sing 270 n n N1A C2A NDP sing 271 n y C2A N3A NDP doub 272 n y C2A H2A NDP sing 273 n n N3A C4A NDP sing 274 n y O3 PN NDP sing 275 n n PN O1N NDP doub 276 n n PN O2N NDP sing 277 n n PN O5D NDP sing 278 n n O2N H21N NDP sing 279 n n O5D C5D NDP sing 280 n n C5D C4D NDP sing 281 n n C5D H51N NDP sing 282 n n C5D H52N NDP sing 283 n n C4D O4D NDP sing 284 n n C4D C3D NDP sing 285 n n C4D H4D NDP sing 286 n n O4D C1D NDP sing 287 n n C3D O3D NDP sing 288 n n C3D C2D NDP sing 289 n n C3D H3D NDP sing 290 n n O3D HO3N NDP sing 291 n n C2D O2D NDP sing 292 n n C2D C1D NDP sing 293 n n C2D H2D NDP sing 294 n n O2D HO2N NDP sing 295 n n C1D N1N NDP sing 296 n n C1D H1D NDP sing 297 n n N1N C2N NDP sing 298 n n N1N C6N NDP sing 299 n n C2N C3N NDP doub 300 n n C2N H2N NDP sing 301 n n C3N C7N NDP sing 302 n n C3N C4N NDP sing 303 n n C7N O7N NDP doub 304 n n C7N N7N NDP sing 305 n n N7N H71N NDP sing 306 n n N7N H72N NDP sing 307 n n C4N C5N NDP sing 308 n n C4N H41N NDP sing 309 n n C4N H42N NDP sing 310 n n C5N C6N NDP doub 311 n n C5N H5N NDP sing 312 n n C6N H6N NDP sing 313 n n P2B O1X NDP doub 314 n n P2B O2X NDP sing 315 n n P2B O3X NDP sing 316 n n O2X HOP2 NDP sing 317 n n O3X HOP3 NDP sing 318 n n # _atom_sites.entry_id 8UPN _atom_sites.fract_transf_matrix[1][1] 0.00765 _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] 0.00765 _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] 0.00765 _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 MG A 1 401 332 MG MG . C 2 MG A 1 402 333 MG MG . D 3 CL A 1 403 340 CL CL . E 4 NDP A 1 404 401 NDP NDP . F 5 WXU A 1 405 350 WXU LIG . G 6 HOH A 1 501 4 HOH HOH . G 6 HOH A 2 502 10 HOH HOH . G 6 HOH A 3 503 8 HOH HOH . G 6 HOH A 4 504 1 HOH HOH . G 6 HOH A 5 505 5 HOH HOH . G 6 HOH A 6 506 2 HOH HOH . G 6 HOH A 7 507 3 HOH HOH . G 6 HOH A 8 508 28 HOH HOH . G 6 HOH A 9 509 23 HOH HOH . G 6 HOH A 10 510 24 HOH HOH . G 6 HOH A 11 511 26 HOH HOH . G 6 HOH A 12 512 22 HOH HOH . G 6 HOH A 13 513 30 HOH HOH . G 6 HOH A 14 514 12 HOH HOH . G 6 HOH A 15 515 16 HOH HOH . G 6 HOH A 16 516 27 HOH HOH . G 6 HOH A 17 517 11 HOH HOH . G 6 HOH A 18 518 17 HOH HOH . G 6 HOH A 19 519 9 HOH HOH . G 6 HOH A 20 520 20 HOH HOH . G 6 HOH A 21 521 25 HOH HOH . G 6 HOH A 22 522 15 HOH HOH . G 6 HOH A 23 523 29 HOH HOH . G 6 HOH A 24 524 6 HOH HOH . G 6 HOH A 25 525 18 HOH HOH . G 6 HOH A 26 526 21 HOH HOH . G 6 HOH A 27 527 13 HOH HOH . G 6 HOH A 28 528 7 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 P PA NDP . A . E 4 45.724 13.076 -17.055 0.88 75.23 ? PA NDP 404 A 1 HETATM 2 O O1A NDP . A . E 4 46.488 12.441 -15.956 0.88 73.19 ? O1A NDP 404 A 1 HETATM 3 O O2A NDP . A . E 4 44.814 14.24 -16.736 0.88 71.85 ? O2A NDP 404 A 1 HETATM 4 O O5B NDP . A . E 4 46.78 13.595 -18.165 0.88 75.12 ? O5B NDP 404 A 1 HETATM 5 C C5B NDP . A . E 4 46.218 14.703 -18.883 0.88 73.41 ? C5B NDP 404 A 1 HETATM 6 C C4B NDP . A . E 4 47.12 15.168 -20.039 0.88 74.67 ? C4B NDP 404 A 1 HETATM 7 O O4B NDP . A . E 4 46.292 15.729 -21.043 0.88 74.58 ? O4B NDP 404 A 1 HETATM 8 C C3B NDP . A . E 4 48.052 16.191 -19.384 0.88 74.34 ? C3B NDP 404 A 1 HETATM 9 O O3B NDP . A . E 4 49.406 15.948 -19.724 0.88 72.82 ? O3B NDP 404 A 1 HETATM 10 C C2B NDP . A . E 4 47.545 17.453 -20.018 0.88 73.33 ? C2B NDP 404 A 1 HETATM 11 O O2B NDP . A . E 4 48.579 18.359 -20.335 0.88 75.02 ? O2B NDP 404 A 1 HETATM 12 C C1B NDP . A . E 4 46.912 16.971 -21.303 0.88 74.18 ? C1B NDP 404 A 1 HETATM 13 N N9A NDP . A . E 4 45.88 17.89 -21.765 0.88 73.49 ? N9A NDP 404 A 1 HETATM 14 C C8A NDP . A . E 4 44.845 18.447 -21.112 0.88 73.76 ? C8A NDP 404 A 1 HETATM 15 N N7A NDP . A . E 4 44.115 19.239 -21.903 0.88 73.17 ? N7A NDP 404 A 1 HETATM 16 C C5A NDP . A . E 4 44.719 19.15 -23.082 0.88 73.19 ? C5A NDP 404 A 1 HETATM 17 C C6A NDP . A . E 4 44.494 19.717 -24.376 0.88 74.68 ? C6A NDP 404 A 1 HETATM 18 N N6A NDP . A . E 4 43.447 20.553 -24.571 0.88 73.71 ? N6A NDP 404 A 1 HETATM 19 N N1A NDP . A . E 4 45.32 19.412 -25.399 0.88 75.69 ? N1A NDP 404 A 1 HETATM 20 C C2A NDP . A . E 4 46.364 18.588 -25.25 0.88 74.59 ? C2A NDP 404 A 1 HETATM 21 N N3A NDP . A . E 4 46.645 18.018 -24.076 0.88 73.41 ? N3A NDP 404 A 1 HETATM 22 C C4A NDP . A . E 4 45.867 18.271 -23.005 0.88 72.93 ? C4A NDP 404 A 1 HETATM 23 O O3 NDP . A . E 4 44.876 11.827 -17.629 0.88 72.92 ? O3 NDP 404 A 1 HETATM 24 P PN NDP . A . E 4 45.563 10.389 -17.518 0.88 71.05 ? PN NDP 404 A 1 HETATM 25 O O1N NDP . A . E 4 46.986 10.603 -17.904 0.88 73.82 ? O1N NDP 404 A 1 HETATM 26 O O2N NDP . A . E 4 45.049 9.736 -16.264 0.88 73.59 ? O2N NDP 404 A 1 HETATM 27 O O5D NDP . A . E 4 45.025 9.506 -18.711 0.88 69.37 ? O5D NDP 404 A 1 HETATM 28 C C5D NDP . A . E 4 43.817 9.941 -19.245 0.88 69.5 ? C5D NDP 404 A 1 HETATM 29 C C4D NDP . A . E 4 43.134 8.817 -19.993 0.88 68.44 ? C4D NDP 404 A 1 HETATM 30 O O4D NDP . A . E 4 43.587 7.563 -19.481 0.88 69.33 ? O4D NDP 404 A 1 HETATM 31 C C3D NDP . A . E 4 41.633 8.899 -19.794 0.88 67.25 ? C3D NDP 404 A 1 HETATM 32 O O3D NDP . A . E 4 40.953 8.736 -21.034 0.88 64.64 ? O3D NDP 404 A 1 HETATM 33 C C2D NDP . A . E 4 41.334 7.758 -18.855 0.88 68.74 ? C2D NDP 404 A 1 HETATM 34 O O2D NDP . A . E 4 40.031 7.208 -18.973 0.88 66.14 ? O2D NDP 404 A 1 HETATM 35 C C1D NDP . A . E 4 42.444 6.751 -19.228 0.88 68.49 ? C1D NDP 404 A 1 HETATM 36 N N1N NDP . A . E 4 42.66 5.693 -18.213 0.88 69.6 ? N1N NDP 404 A 1 HETATM 37 C C2N NDP . A . E 4 42.491 5.938 -16.914 0.88 70.9 ? C2N NDP 404 A 1 HETATM 38 C C3N NDP . A . E 4 42.645 4.926 -15.972 0.88 73 ? C3N NDP 404 A 1 HETATM 39 C C7N NDP . A . E 4 42.508 5.254 -14.52 0.88 75.19 ? C7N NDP 404 A 1 HETATM 40 O O7N NDP . A . E 4 42.748 4.383 -13.694 0.88 75.78 ? O7N NDP 404 A 1 HETATM 41 N N7N NDP . A . E 4 42.369 6.55 -14.113 0.88 74.16 ? N7N NDP 404 A 1 HETATM 42 C C4N NDP . A . E 4 42.96 3.496 -16.364 0.88 70.76 ? C4N NDP 404 A 1 HETATM 43 C C5N NDP . A . E 4 43.219 3.403 -17.772 0.88 67.86 ? C5N NDP 404 A 1 HETATM 44 C C6N NDP . A . E 4 43.026 4.465 -18.62 0.88 68.4 ? C6N NDP 404 A 1 HETATM 45 P P2B NDP . A . E 4 49.028 19.431 -19.214 0.88 76.54 ? P2B NDP 404 A 1 HETATM 46 O O1X NDP . A . E 4 49.598 18.462 -18.203 0.88 73.43 ? O1X NDP 404 A 1 HETATM 47 O O2X NDP . A . E 4 47.738 19.998 -18.695 0.88 75.26 ? O2X NDP 404 A 1 HETATM 48 O O3X NDP . A . E 4 49.924 20.499 -19.875 0.88 77.13 ? O3X NDP 404 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 48 #