data_8VTC # _model_server_result.job_id CQgk578q4tmDecH2UGXSJQ _model_server_result.datetime_utc '2025-07-27 19:03:25' _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 8vtc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 8VTC # _exptl.entry_id 8VTC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 2 _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 8VTC _cell.length_a 70.251 _cell.length_b 70.251 _cell.length_c 73.511 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VTC _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _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 8VTC _atom_sites.fract_transf_matrix[1][1] 0.014235 _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] 0.014235 _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] 0.013603 _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 NDP A 1 201 1168 NDP NDP . C 3 TOP A 1 202 1169 TOP TOP . D 4 CL A 1 203 1 CL CL . E 5 HOH A 1 301 22 HOH HOH . E 5 HOH A 2 302 24 HOH HOH . E 5 HOH A 3 303 30 HOH HOH . E 5 HOH A 4 304 40 HOH HOH . E 5 HOH A 5 305 8 HOH HOH . E 5 HOH A 6 306 10 HOH HOH . E 5 HOH A 7 307 15 HOH HOH . E 5 HOH A 8 308 48 HOH HOH . E 5 HOH A 9 309 28 HOH HOH . E 5 HOH A 10 310 36 HOH HOH . E 5 HOH A 11 311 19 HOH HOH . E 5 HOH A 12 312 37 HOH HOH . E 5 HOH A 13 313 7 HOH HOH . E 5 HOH A 14 314 1 HOH HOH . E 5 HOH A 15 315 2 HOH HOH . E 5 HOH A 16 316 5 HOH HOH . E 5 HOH A 17 317 39 HOH HOH . E 5 HOH A 18 318 46 HOH HOH . E 5 HOH A 19 319 26 HOH HOH . E 5 HOH A 20 320 31 HOH HOH . E 5 HOH A 21 321 20 HOH HOH . E 5 HOH A 22 322 12 HOH HOH . E 5 HOH A 23 323 9 HOH HOH . E 5 HOH A 24 324 4 HOH HOH . E 5 HOH A 25 325 25 HOH HOH . E 5 HOH A 26 326 17 HOH HOH . E 5 HOH A 27 327 16 HOH HOH . E 5 HOH A 28 328 44 HOH HOH . E 5 HOH A 29 329 34 HOH HOH . E 5 HOH A 30 330 3 HOH HOH . E 5 HOH A 31 331 21 HOH HOH . E 5 HOH A 32 332 32 HOH HOH . E 5 HOH A 33 333 47 HOH HOH . E 5 HOH A 34 334 45 HOH HOH . E 5 HOH A 35 335 11 HOH HOH . E 5 HOH A 36 336 23 HOH HOH . E 5 HOH A 37 337 49 HOH HOH . E 5 HOH A 38 338 35 HOH HOH . E 5 HOH A 39 339 33 HOH HOH . E 5 HOH A 40 340 43 HOH HOH . E 5 HOH A 41 341 18 HOH HOH . E 5 HOH A 42 342 29 HOH HOH . E 5 HOH A 43 343 13 HOH HOH . E 5 HOH A 44 344 27 HOH HOH . E 5 HOH A 45 345 38 HOH HOH . E 5 HOH A 46 346 41 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 . . . B 2 -14.954 20.941 6.578 1 34.96 ? PA NDP 201 A 1 HETATM 2 O O1A NDP . . . B 2 -13.708 20.257 6.14 1 34.45 ? O1A NDP 201 A 1 HETATM 3 O O2A NDP . . . B 2 -16.134 20.978 5.672 1 36.27 ? O2A NDP 201 A 1 HETATM 4 O O5B NDP . . . B 2 -15.484 20.358 7.972 1 36.07 ? O5B NDP 201 A 1 HETATM 5 C C5B NDP . . . B 2 -14.674 20.404 9.15 1 38.29 ? C5B NDP 201 A 1 HETATM 6 C C4B NDP . . . B 2 -15.38 19.6 10.197 1 40.28 ? C4B NDP 201 A 1 HETATM 7 O O4B NDP . . . B 2 -15.234 18.186 9.909 1 40.27 ? O4B NDP 201 A 1 HETATM 8 C C3B NDP . . . B 2 -14.893 19.763 11.64 1 41.42 ? C3B NDP 201 A 1 HETATM 9 O O3B NDP . . . B 2 -15.445 20.945 12.203 1 40.25 ? O3B NDP 201 A 1 HETATM 10 C C2B NDP . . . B 2 -15.473 18.495 12.249 1 43.14 ? C2B NDP 201 A 1 HETATM 11 O O2B NDP . . . B 2 -16.884 18.586 12.478 1 44.38 ? O2B NDP 201 A 1 HETATM 12 C C1B NDP . . . B 2 -15.242 17.483 11.131 1 41.26 ? C1B NDP 201 A 1 HETATM 13 N N9A NDP . . . B 2 -13.97 16.798 11.242 1 41.28 ? N9A NDP 201 A 1 HETATM 14 C C8A NDP . . . B 2 -12.726 17.264 10.89 1 40.84 ? C8A NDP 201 A 1 HETATM 15 N N7A NDP . . . B 2 -11.774 16.388 11.087 1 41.37 ? N7A NDP 201 A 1 HETATM 16 C C5A NDP . . . B 2 -12.437 15.287 11.609 1 41.36 ? C5A NDP 201 A 1 HETATM 17 C C6A NDP . . . B 2 -11.987 14.027 12.022 1 43.26 ? C6A NDP 201 A 1 HETATM 18 N N6A NDP . . . B 2 -10.707 13.658 11.979 1 46.72 ? N6A NDP 201 A 1 HETATM 19 N N1A NDP . . . B 2 -12.923 13.156 12.468 1 42.73 ? N1A NDP 201 A 1 HETATM 20 C C2A NDP . . . B 2 -14.21 13.531 12.489 1 41.47 ? C2A NDP 201 A 1 HETATM 21 N N3A NDP . . . B 2 -14.747 14.684 12.121 1 41.17 ? N3A NDP 201 A 1 HETATM 22 C C4A NDP . . . B 2 -13.795 15.522 11.689 1 40.14 ? C4A NDP 201 A 1 HETATM 23 O O3 NDP . . . B 2 -14.56 22.435 6.986 1 36.97 ? O3 NDP 201 A 1 HETATM 24 P PN NDP . . . B 2 -13.629 23.552 6.333 1 37.37 ? PN NDP 201 A 1 HETATM 25 O O1N NDP . . . B 2 -12.25 22.987 6.287 1 38.65 ? O1N NDP 201 A 1 HETATM 26 O O2N NDP . . . B 2 -13.878 24.803 7.099 1 39.05 ? O2N NDP 201 A 1 HETATM 27 O O5D NDP . . . B 2 -14.185 23.74 4.837 1 36.08 ? O5D NDP 201 A 1 HETATM 28 C C5D NDP . . . B 2 -15.497 24.371 4.655 1 36.77 ? C5D NDP 201 A 1 HETATM 29 C C4D NDP . . . B 2 -15.375 25.541 3.714 1 34.55 ? C4D NDP 201 A 1 HETATM 30 O O4D NDP . . . B 2 -15.028 25.018 2.412 1 33.88 ? O4D NDP 201 A 1 HETATM 31 C C3D NDP . . . B 2 -16.632 26.397 3.489 1 37.14 ? C3D NDP 201 A 1 HETATM 32 O O3D NDP . . . B 2 -16.286 27.763 3.277 1 39.22 ? O3D NDP 201 A 1 HETATM 33 C C2D NDP . . . B 2 -17.221 25.805 2.208 1 35.49 ? C2D NDP 201 A 1 HETATM 34 O O2D NDP . . . B 2 -18.081 26.724 1.542 1 38.7 ? O2D NDP 201 A 1 HETATM 35 C C1D NDP . . . B 2 -15.942 25.492 1.434 1 34.91 ? C1D NDP 201 A 1 HETATM 36 N N1N NDP . . . B 2 -16.095 24.449 0.356 1 34.39 ? N1N NDP 201 A 1 HETATM 37 C C2N NDP . . . B 2 -15.7 24.747 -0.924 1 31.95 ? C2N NDP 201 A 1 HETATM 38 C C3N NDP . . . B 2 -15.682 23.819 -1.924 1 30.27 ? C3N NDP 201 A 1 HETATM 39 C C7N NDP . . . B 2 -15.078 24.146 -3.236 1 30.71 ? C7N NDP 201 A 1 HETATM 40 O O7N NDP . . . B 2 -14.895 23.204 -4.008 1 29.11 ? O7N NDP 201 A 1 HETATM 41 N N7N NDP . . . B 2 -14.792 25.395 -3.599 1 29.99 ? N7N NDP 201 A 1 HETATM 42 C C4N NDP . . . B 2 -16.281 22.478 -1.682 1 30.33 ? C4N NDP 201 A 1 HETATM 43 C C5N NDP . . . B 2 -16.808 22.286 -0.306 1 31.65 ? C5N NDP 201 A 1 HETATM 44 C C6N NDP . . . B 2 -16.673 23.216 0.625 1 33.89 ? C6N NDP 201 A 1 HETATM 45 P P2B NDP . . . B 2 -17.304 18.659 14.026 1 47.47 ? P2B NDP 201 A 1 HETATM 46 O O1X NDP . . . B 2 -16.764 19.996 14.469 1 47 ? O1X NDP 201 A 1 HETATM 47 O O2X NDP . . . B 2 -18.824 18.623 14.002 1 48.2 ? O2X NDP 201 A 1 HETATM 48 O O3X NDP . . . B 2 -16.689 17.49 14.747 1 45.97 ? O3X NDP 201 A 1 HETATM 49 H H51A NDP . . . B 2 -14.565 21.339 9.456 1 40.87 ? H51A NDP 201 A 1 HETATM 50 H H52A NDP . . . B 2 -13.783 20.019 8.97 1 39.8 ? H52A NDP 201 A 1 HETATM 51 H H4B NDP . . . B 2 -16.333 19.83 10.161 1 41.75 ? H4B NDP 201 A 1 HETATM 52 H H3B NDP . . . B 2 -13.903 19.768 11.698 1 43.66 ? H3B NDP 201 A 1 HETATM 53 H HO3A NDP . . . B 2 -15.157 21.022 13 0 30 ? HO3A NDP 201 A 1 HETATM 54 H H2B NDP . . . B 2 -14.991 18.243 13.07 1 45.65 ? H2B NDP 201 A 1 HETATM 55 H H1B NDP . . . B 2 -15.971 16.825 11.132 1 42.76 ? H1B NDP 201 A 1 HETATM 56 H H8A NDP . . . B 2 -12.576 18.125 10.544 1 41.81 ? H8A NDP 201 A 1 HETATM 57 H H61A NDP . . . B 2 -10.476 12.856 12.25 1 46.06 ? H61A NDP 201 A 1 HETATM 58 H H62A NDP . . . B 2 -10.102 14.219 11.682 1 44.82 ? H62A NDP 201 A 1 HETATM 59 H H2A NDP . . . B 2 -14.817 12.885 12.816 1 46.02 ? H2A NDP 201 A 1 HETATM 60 H H51N NDP . . . B 2 -15.847 24.682 5.526 1 37.87 ? H51N NDP 201 A 1 HETATM 61 H H52N NDP . . . B 2 -16.134 23.713 4.282 1 36.09 ? H52N NDP 201 A 1 HETATM 62 H H4D NDP . . . B 2 -14.643 26.114 4.027 1 36.97 ? H4D NDP 201 A 1 HETATM 63 H H3D NDP . . . B 2 -17.27 26.308 4.244 1 38.18 ? H3D NDP 201 A 1 HETATM 64 H HO3N NDP . . . B 2 -17 28.21 3.157 0 30 ? HO3N NDP 201 A 1 HETATM 65 H H2D NDP . . . B 2 -17.712 24.975 2.418 1 35.72 ? H2D NDP 201 A 1 HETATM 66 H HO2N NDP . . . B 2 -18.388 26.366 0.841 0 30 ? HO2N NDP 201 A 1 HETATM 67 H H1D NDP . . . B 2 -15.586 26.321 1.034 1 34.68 ? H1D NDP 201 A 1 HETATM 68 H H2N NDP . . . B 2 -15.439 25.627 -1.119 1 32.74 ? H2N NDP 201 A 1 HETATM 69 H H71N NDP . . . B 2 -14.455 25.556 -4.404 1 31.08 ? H71N NDP 201 A 1 HETATM 70 H H72N NDP . . . B 2 -14.941 26.073 -3.05 1 31.94 ? H72N NDP 201 A 1 HETATM 71 H H41N NDP . . . B 2 -15.606 21.79 -1.859 1 30.83 ? H41N NDP 201 A 1 HETATM 72 H H42N NDP . . . B 2 -17.003 22.334 -2.327 1 31.2 ? H42N NDP 201 A 1 HETATM 73 H H5N NDP . . . B 2 -17.261 21.471 -0.091 1 32.19 ? H5N NDP 201 A 1 HETATM 74 H H6N NDP . . . B 2 -16.975 23.043 1.496 1 33.65 ? H6N NDP 201 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 74 #