data_8SXD # _model_server_result.job_id m9g_K-24jicV3J2LK7JP1Q _model_server_result.datetime_utc '2025-01-02 17:09:57' _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 8sxd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":405}' # _entry.id 8SXD # _exptl.entry_id 8SXD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 5 _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 8SXD _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 8SXD _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 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,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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 'crystal symmetry operation' 8_555 -z,x,-y 0 0 -1 1 0 0 0 -1 0 0 0 0 3 'crystal symmetry operation' 11_555 y,-z,-x 0 1 0 0 0 -1 -1 0 0 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _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 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc2 A OD2 ASP 192 A ASP 192 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc3 A OE2 GLU 196 A GLU 196 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.859 ? metalc ? metalc4 A OE1 GLU 228 A GLU 228 1_555 C MG MG . A MG 402 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc5 A OE1 GLU 232 A GLU 232 1_555 C MG MG . A MG 402 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc6 B O07 WXU . A WXU 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? metalc ? metalc7 B O01 WXU . A WXU 401 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc8 B O09 WXU . A WXU 401 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc9 C MG MG . A MG 402 1_555 H O HOH . A HOH 503 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? metalc ? metalc10 C MG MG . A MG 402 1_555 H O HOH . A HOH 506 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc11 D MG MG . A MG 403 1_555 H O HOH . A HOH 520 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc12 D MG MG . A MG 403 1_555 H O HOH . A HOH 522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? # _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 252 n n PA O2A NDP sing 253 n n PA O5B NDP sing 254 n n PA O3 NDP sing 255 n n O2A HOA2 NDP sing 256 n n O5B C5B NDP sing 257 n n C5B C4B NDP sing 258 n n C5B H51A NDP sing 259 n n C5B H52A NDP sing 260 n n C4B O4B NDP sing 261 n n C4B C3B NDP sing 262 n n C4B H4B NDP sing 263 n n O4B C1B NDP sing 264 n n C3B O3B NDP sing 265 n n C3B C2B NDP sing 266 n n C3B H3B NDP sing 267 n n O3B HO3A NDP sing 268 n n C2B O2B NDP sing 269 n n C2B C1B NDP sing 270 n n C2B H2B NDP sing 271 n n O2B P2B NDP sing 272 n n C1B N9A NDP sing 273 n n C1B H1B NDP sing 274 n n N9A C8A NDP sing 275 n y N9A C4A NDP sing 276 n y C8A N7A NDP doub 277 n y C8A H8A NDP sing 278 n n N7A C5A NDP sing 279 n y C5A C6A NDP sing 280 n y C5A C4A NDP doub 281 n y C6A N6A NDP sing 282 n n C6A N1A NDP doub 283 n y N6A H61A NDP sing 284 n n N6A H62A NDP sing 285 n n N1A C2A NDP sing 286 n y C2A N3A NDP doub 287 n y C2A H2A NDP sing 288 n n N3A C4A NDP sing 289 n y O3 PN NDP sing 290 n n PN O1N NDP doub 291 n n PN O2N NDP sing 292 n n PN O5D NDP sing 293 n n O2N H21N NDP sing 294 n n O5D C5D NDP sing 295 n n C5D C4D NDP sing 296 n n C5D H51N NDP sing 297 n n C5D H52N NDP sing 298 n n C4D O4D NDP sing 299 n n C4D C3D NDP sing 300 n n C4D H4D NDP sing 301 n n O4D C1D NDP sing 302 n n C3D O3D NDP sing 303 n n C3D C2D NDP sing 304 n n C3D H3D NDP sing 305 n n O3D HO3N NDP sing 306 n n C2D O2D NDP sing 307 n n C2D C1D NDP sing 308 n n C2D H2D NDP sing 309 n n O2D HO2N NDP sing 310 n n C1D N1N NDP sing 311 n n C1D H1D NDP sing 312 n n N1N C2N NDP sing 313 n n N1N C6N NDP sing 314 n n C2N C3N NDP doub 315 n n C2N H2N NDP sing 316 n n C3N C7N NDP sing 317 n n C3N C4N NDP sing 318 n n C7N O7N NDP doub 319 n n C7N N7N NDP sing 320 n n N7N H71N NDP sing 321 n n N7N H72N NDP sing 322 n n C4N C5N NDP sing 323 n n C4N H41N NDP sing 324 n n C4N H42N NDP sing 325 n n C5N C6N NDP doub 326 n n C5N H5N NDP sing 327 n n C6N H6N NDP sing 328 n n P2B O1X NDP doub 329 n n P2B O2X NDP sing 330 n n P2B O3X NDP sing 331 n n O2X HOP2 NDP sing 332 n n O3X HOP3 NDP sing 333 n n # _atom_sites.entry_id 8SXD _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 WXU A 1 401 401 WXU LIG . C 3 MG A 1 402 341 MG MG . D 3 MG A 1 403 342 MG MG . E 4 NCA A 1 404 1 NCA NCA . F 5 NDP A 1 405 2 NDP NDP . G 6 CL A 1 406 2 CL CL . H 7 HOH A 1 501 8 HOH HOH . H 7 HOH A 2 502 24 HOH HOH . H 7 HOH A 3 503 4 HOH HOH . H 7 HOH A 4 504 22 HOH HOH . H 7 HOH A 5 505 27 HOH HOH . H 7 HOH A 6 506 1 HOH HOH . H 7 HOH A 7 507 10 HOH HOH . H 7 HOH A 8 508 23 HOH HOH . H 7 HOH A 9 509 5 HOH HOH . H 7 HOH A 10 510 9 HOH HOH . H 7 HOH A 11 511 26 HOH HOH . H 7 HOH A 12 512 6 HOH HOH . H 7 HOH A 13 513 12 HOH HOH . H 7 HOH A 14 514 29 HOH HOH . H 7 HOH A 15 515 11 HOH HOH . H 7 HOH A 16 516 16 HOH HOH . H 7 HOH A 17 517 30 HOH HOH . H 7 HOH A 18 518 17 HOH HOH . H 7 HOH A 19 519 31 HOH HOH . H 7 HOH A 20 520 2 HOH HOH . H 7 HOH A 21 521 15 HOH HOH . H 7 HOH A 22 522 3 HOH HOH . H 7 HOH A 23 523 25 HOH HOH . H 7 HOH A 24 524 28 HOH HOH . H 7 HOH A 25 525 39 HOH HOH . H 7 HOH A 26 526 20 HOH HOH . H 7 HOH A 27 527 35 HOH HOH . H 7 HOH A 28 528 33 HOH HOH . H 7 HOH A 29 529 21 HOH HOH . H 7 HOH A 30 530 18 HOH HOH . H 7 HOH A 31 531 32 HOH HOH . H 7 HOH A 32 532 38 HOH HOH . H 7 HOH A 33 533 7 HOH HOH . H 7 HOH A 34 534 36 HOH HOH . H 7 HOH A 35 535 34 HOH HOH . H 7 HOH A 36 536 37 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 . F 5 45.839 13.072 -17.033 1 88.7 ? PA NDP 405 A 1 HETATM 2 O O1A NDP . B . F 5 46.742 12.45 -16.007 1 89.88 ? O1A NDP 405 A 1 HETATM 3 O O2A NDP . B . F 5 44.9 14.183 -16.659 1 89.82 ? O2A NDP 405 A 1 HETATM 4 O O5B NDP . B . F 5 46.758 13.587 -18.234 1 94.06 ? O5B NDP 405 A 1 HETATM 5 C C5B NDP . B . F 5 46.176 14.311 -19.307 1 91.13 ? C5B NDP 405 A 1 HETATM 6 C C4B NDP . B . F 5 47.3 14.872 -20.156 1 93.25 ? C4B NDP 405 A 1 HETATM 7 O O4B NDP . B . F 5 46.759 15.512 -21.307 1 93.46 ? O4B NDP 405 A 1 HETATM 8 C C3B NDP . B . F 5 48.092 15.914 -19.4 1 92.92 ? C3B NDP 405 A 1 HETATM 9 O O3B NDP . B . F 5 49.483 15.699 -19.596 1 88.54 ? O3B NDP 405 A 1 HETATM 10 C C2B NDP . B . F 5 47.7 17.225 -20.012 1 91.68 ? C2B NDP 405 A 1 HETATM 11 O O2B NDP . B . F 5 48.798 18.117 -20.061 1 95.91 ? O2B NDP 405 A 1 HETATM 12 C C1B NDP . B . F 5 47.273 16.833 -21.402 1 90.38 ? C1B NDP 405 A 1 HETATM 13 N N9A NDP . B . F 5 46.209 17.72 -21.886 1 90.67 ? N9A NDP 405 A 1 HETATM 14 C C8A NDP . B . F 5 45.217 18.259 -21.166 1 90.22 ? C8A NDP 405 A 1 HETATM 15 N N7A NDP . B . F 5 44.421 19.023 -21.955 1 87.28 ? N7A NDP 405 A 1 HETATM 16 C C5A NDP . B . F 5 44.916 18.966 -23.201 1 91.71 ? C5A NDP 405 A 1 HETATM 17 C C6A NDP . B . F 5 44.57 19.535 -24.518 1 95.19 ? C6A NDP 405 A 1 HETATM 18 N N6A NDP . B . F 5 43.498 20.345 -24.671 1 91.72 ? N6A NDP 405 A 1 HETATM 19 N N1A NDP . B . F 5 45.362 19.217 -25.561 1 99.68 ? N1A NDP 405 A 1 HETATM 20 C C2A NDP . B . F 5 46.43 18.414 -25.427 1 95.56 ? C2A NDP 405 A 1 HETATM 21 N N3A NDP . B . F 5 46.804 17.863 -24.267 1 90.14 ? N3A NDP 405 A 1 HETATM 22 C C4A NDP . B . F 5 46.096 18.102 -23.145 1 91.56 ? C4A NDP 405 A 1 HETATM 23 O O3 NDP . B . F 5 44.992 11.908 -17.735 1 97.11 ? O3 NDP 405 A 1 HETATM 24 P PN NDP . B . F 5 45.508 10.4 -17.603 1 91.92 ? PN NDP 405 A 1 HETATM 25 O O1N NDP . B . F 5 46.843 10.304 -18.286 1 92.19 ? O1N NDP 405 A 1 HETATM 26 O O2N NDP . B . F 5 45.351 9.99 -16.166 1 98.36 ? O2N NDP 405 A 1 HETATM 27 O O5D NDP . B . F 5 44.423 9.575 -18.441 1 94.42 ? O5D NDP 405 A 1 HETATM 28 C C5D NDP . B . F 5 44.415 9.607 -19.86 1 92.12 ? C5D NDP 405 A 1 HETATM 29 C C4D NDP . B . F 5 43.326 8.663 -20.337 1 90.37 ? C4D NDP 405 A 1 HETATM 30 O O4D NDP . B . F 5 43.626 7.322 -19.956 1 92.53 ? O4D NDP 405 A 1 HETATM 31 C C3D NDP . B . F 5 41.996 9.005 -19.704 1 91.93 ? C3D NDP 405 A 1 HETATM 32 O O3D NDP . B . F 5 41.061 9.285 -20.738 1 91.5 ? O3D NDP 405 A 1 HETATM 33 C C2D NDP . B . F 5 41.583 7.785 -18.916 1 94.23 ? C2D NDP 405 A 1 HETATM 34 O O2D NDP . B . F 5 40.204 7.481 -19.098 1 94.89 ? O2D NDP 405 A 1 HETATM 35 C C1D NDP . B . F 5 42.449 6.677 -19.472 1 95.82 ? C1D NDP 405 A 1 HETATM 36 N N1N NDP . B . F 5 42.776 5.676 -18.455 1 101.41 ? N1N NDP 405 A 1 HETATM 37 C C2N NDP . B . F 5 42.687 5.959 -17.154 1 102.94 ? C2N NDP 405 A 1 HETATM 38 C C3N NDP . B . F 5 42.995 5.005 -16.19 1 104.76 ? C3N NDP 405 A 1 HETATM 39 C C7N NDP . B . F 5 42.887 5.344 -14.739 1 103.76 ? C7N NDP 405 A 1 HETATM 40 O O7N NDP . B . F 5 42.977 4.45 -13.915 1 102.25 ? O7N NDP 405 A 1 HETATM 41 N N7N NDP . B . F 5 42.693 6.611 -14.39 1 101.56 ? N7N NDP 405 A 1 HETATM 42 C C4N NDP . B . F 5 43.439 3.614 -16.561 1 101.83 ? C4N NDP 405 A 1 HETATM 43 C C5N NDP . B . F 5 43.491 3.444 -18.002 1 101.39 ? C5N NDP 405 A 1 HETATM 44 C C6N NDP . B . F 5 43.159 4.469 -18.873 1 101.2 ? C6N NDP 405 A 1 HETATM 45 P P2B NDP . B . F 5 48.732 19.508 -19.268 1 100.84 ? P2B NDP 405 A 1 HETATM 46 O O1X NDP . B . F 5 49.791 19.375 -18.211 1 97.42 ? O1X NDP 405 A 1 HETATM 47 O O2X NDP . B . F 5 47.327 19.562 -18.735 1 95.93 ? O2X NDP 405 A 1 HETATM 48 O O3X NDP . B . F 5 49.026 20.534 -20.326 1 104.58 ? O3X NDP 405 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 48 #