data_5XV2 # _model_server_result.job_id IkRK7Nl_iXGAQ1PEBtQrwg _model_server_result.datetime_utc '2025-04-13 22:28:41' _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 5xv2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5XV2 # _exptl.entry_id 5XV2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP 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 120 _cell.entry_id 5XV2 _cell.length_a 70.147 _cell.length_b 70.147 _cell.length_c 217.458 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XV2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 64 2 2' # _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 _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 'crystal symmetry operation' 4_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 -35.0735 60.749084 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 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # 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 NAP doub 224 n n PA O2A NAP sing 225 n n PA O5B NAP sing 226 n n PA O3 NAP sing 227 n n O2A HOA2 NAP sing 228 n n O5B C5B NAP sing 229 n n C5B C4B NAP sing 230 n n C5B H51A NAP sing 231 n n C5B H52A NAP sing 232 n n C4B O4B NAP sing 233 n n C4B C3B NAP sing 234 n n C4B H4B NAP sing 235 n n O4B C1B NAP sing 236 n n C3B O3B NAP sing 237 n n C3B C2B NAP sing 238 n n C3B H3B NAP sing 239 n n O3B HO3A NAP sing 240 n n C2B O2B NAP sing 241 n n C2B C1B NAP sing 242 n n C2B H2B NAP sing 243 n n O2B P2B NAP sing 244 n n C1B N9A NAP sing 245 n n C1B H1B NAP sing 246 n n N9A C8A NAP sing 247 n y N9A C4A NAP sing 248 n y C8A N7A NAP doub 249 n y C8A H8A NAP sing 250 n n N7A C5A NAP sing 251 n y C5A C6A NAP sing 252 n y C5A C4A NAP doub 253 n y C6A N6A NAP sing 254 n n C6A N1A NAP doub 255 n y N6A H61A NAP sing 256 n n N6A H62A NAP sing 257 n n N1A C2A NAP sing 258 n y C2A N3A NAP doub 259 n y C2A H2A NAP sing 260 n n N3A C4A NAP sing 261 n y O3 PN NAP sing 262 n n PN O1N NAP doub 263 n n PN O2N NAP sing 264 n n PN O5D NAP sing 265 n n O5D C5D NAP sing 266 n n C5D C4D NAP sing 267 n n C5D H51N NAP sing 268 n n C5D H52N NAP sing 269 n n C4D O4D NAP sing 270 n n C4D C3D NAP sing 271 n n C4D H4D NAP sing 272 n n O4D C1D NAP sing 273 n n C3D O3D NAP sing 274 n n C3D C2D NAP sing 275 n n C3D H3D NAP sing 276 n n O3D HO3N NAP sing 277 n n C2D O2D NAP sing 278 n n C2D C1D NAP sing 279 n n C2D H2D NAP sing 280 n n O2D HO2N NAP sing 281 n n C1D N1N NAP sing 282 n n C1D H1D NAP sing 283 n n N1N C2N NAP sing 284 n y N1N C6N NAP doub 285 n y C2N C3N NAP doub 286 n y C2N H2N NAP sing 287 n n C3N C7N NAP sing 288 n n C3N C4N NAP sing 289 n y C7N O7N NAP doub 290 n n C7N N7N NAP sing 291 n n N7N H71N NAP sing 292 n n N7N H72N NAP sing 293 n n C4N C5N NAP doub 294 n y C4N H4N NAP sing 295 n n C5N C6N NAP sing 296 n y C5N H5N NAP sing 297 n n C6N H6N NAP sing 298 n n P2B O1X NAP doub 299 n n P2B O2X NAP sing 300 n n P2B O3X NAP sing 301 n n O2X HOP2 NAP sing 302 n n O3X HOP3 NAP sing 303 n n # _atom_sites.entry_id 5XV2 _atom_sites.fract_transf_matrix[1][1] 0.014256 _atom_sites.fract_transf_matrix[1][2] 0.008231 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016461 _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] 0.004599 _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 NAP A 1 301 301 NAP NAP . C 3 HOH A 1 401 401 HOH HOH . C 3 HOH A 2 402 402 HOH HOH . C 3 HOH A 3 403 403 HOH HOH . C 3 HOH A 4 404 404 HOH HOH . C 3 HOH A 5 405 405 HOH HOH . C 3 HOH A 6 406 406 HOH HOH . C 3 HOH A 7 407 407 HOH HOH . C 3 HOH A 8 408 409 HOH HOH . C 3 HOH A 9 409 408 HOH HOH . C 3 HOH A 10 410 411 HOH HOH . C 3 HOH A 11 411 410 HOH HOH . C 3 HOH A 12 412 413 HOH HOH . C 3 HOH A 13 413 412 HOH HOH . C 3 HOH A 14 414 414 HOH HOH . C 3 HOH A 15 415 415 HOH HOH . C 3 HOH A 16 416 417 HOH HOH . C 3 HOH A 17 417 418 HOH HOH . C 3 HOH A 18 418 416 HOH HOH . C 3 HOH A 19 419 419 HOH HOH . C 3 HOH A 20 420 420 HOH HOH . C 3 HOH A 21 421 421 HOH HOH . C 3 HOH A 22 422 422 HOH HOH . C 3 HOH A 23 423 423 HOH HOH . C 3 HOH A 24 424 424 HOH HOH . C 3 HOH A 25 425 425 HOH HOH . C 3 HOH A 26 426 427 HOH HOH . C 3 HOH A 27 427 426 HOH HOH . C 3 HOH A 28 428 428 HOH HOH . C 3 HOH A 29 429 429 HOH HOH . C 3 HOH A 30 430 431 HOH HOH . C 3 HOH A 31 431 430 HOH HOH . C 3 HOH A 32 432 432 HOH HOH . C 3 HOH A 33 433 433 HOH HOH . C 3 HOH A 34 434 434 HOH HOH . C 3 HOH A 35 435 436 HOH HOH . C 3 HOH A 36 436 435 HOH HOH . C 3 HOH A 37 437 437 HOH HOH . C 3 HOH A 38 438 438 HOH HOH . C 3 HOH A 39 439 439 HOH HOH . C 3 HOH A 40 440 440 HOH HOH . C 3 HOH A 41 441 441 HOH HOH . C 3 HOH A 42 442 442 HOH HOH . C 3 HOH A 43 443 443 HOH HOH . C 3 HOH A 44 444 445 HOH HOH . C 3 HOH A 45 445 444 HOH HOH . C 3 HOH A 46 446 446 HOH HOH . C 3 HOH A 47 447 447 HOH HOH . C 3 HOH A 48 448 448 HOH HOH . C 3 HOH A 49 449 449 HOH HOH . C 3 HOH A 50 450 450 HOH HOH . C 3 HOH A 51 451 451 HOH HOH . C 3 HOH A 52 452 452 HOH HOH . C 3 HOH A 53 453 453 HOH HOH . C 3 HOH A 54 454 454 HOH HOH . C 3 HOH A 55 455 457 HOH HOH . C 3 HOH A 56 456 456 HOH HOH . C 3 HOH A 57 457 455 HOH HOH . C 3 HOH A 58 458 458 HOH HOH . C 3 HOH A 59 459 459 HOH HOH . C 3 HOH A 60 460 460 HOH HOH . C 3 HOH A 61 461 461 HOH HOH . C 3 HOH A 62 462 462 HOH HOH . C 3 HOH A 63 463 463 HOH HOH . C 3 HOH A 64 464 464 HOH HOH . C 3 HOH A 65 465 465 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 NAP . . . B 2 -27.35 20.269 25.244 1 49.8 ? PA NAP 301 A 1 HETATM 2 O O1A NAP . . . B 2 -28.591 20.135 24.386 1 41.7 ? O1A NAP 301 A 1 HETATM 3 O O2A NAP . . . B 2 -25.936 20.273 24.689 1 45.16 ? O2A NAP 301 A 1 HETATM 4 O O5B NAP . . . B 2 -27.447 19.068 26.307 1 49.1 ? O5B NAP 301 A 1 HETATM 5 C C5B NAP . . . B 2 -26.416 19.014 27.272 1 55.39 ? C5B NAP 301 A 1 HETATM 6 C C4B NAP . . . B 2 -26.707 17.982 28.332 1 55.72 ? C4B NAP 301 A 1 HETATM 7 O O4B NAP . . . B 2 -26.725 16.659 27.772 1 55.66 ? O4B NAP 301 A 1 HETATM 8 C C3B NAP . . . B 2 -25.586 17.918 29.349 1 55.65 ? C3B NAP 301 A 1 HETATM 9 O O3B NAP . . . B 2 -25.486 19.048 30.217 1 54.78 ? O3B NAP 301 A 1 HETATM 10 C C2B NAP . . . B 2 -25.942 16.601 30.021 1 56.84 ? C2B NAP 301 A 1 HETATM 11 O O2B NAP . . . B 2 -26.846 16.819 31.12 1 60.61 ? O2B NAP 301 A 1 HETATM 12 C C1B NAP . . . B 2 -26.551 15.76 28.864 1 57.76 ? C1B NAP 301 A 1 HETATM 13 N N9A NAP . . . B 2 -25.631 14.616 28.639 1 58.19 ? N9A NAP 301 A 1 HETATM 14 C C8A NAP . . . B 2 -25.845 13.361 29.076 1 55.89 ? C8A NAP 301 A 1 HETATM 15 N N7A NAP . . . B 2 -24.788 12.563 28.797 1 54.51 ? N7A NAP 301 A 1 HETATM 16 C C5A NAP . . . B 2 -23.879 13.321 28.176 1 53.11 ? C5A NAP 301 A 1 HETATM 17 C C6A NAP . . . B 2 -22.548 13.114 27.605 1 50.97 ? C6A NAP 301 A 1 HETATM 18 N N6A NAP . . . B 2 -21.987 11.894 27.647 1 49.42 ? N6A NAP 301 A 1 HETATM 19 N N1A NAP . . . B 2 -21.912 14.185 27.054 1 52.63 ? N1A NAP 301 A 1 HETATM 20 C C2A NAP . . . B 2 -22.468 15.412 27.001 1 52.34 ? C2A NAP 301 A 1 HETATM 21 N N3A NAP . . . B 2 -23.692 15.675 27.487 1 54.48 ? N3A NAP 301 A 1 HETATM 22 C C4A NAP . . . B 2 -24.423 14.687 28.08 1 57.73 ? C4A NAP 301 A 1 HETATM 23 O O3 NAP . . . B 2 -27.51 21.555 26.205 1 53.32 ? O3 NAP 301 A 1 HETATM 24 P PN NAP . . . B 2 -26.527 22.858 26.26 1 50.45 ? PN NAP 301 A 1 HETATM 25 O O1N NAP . . . B 2 -25.077 22.482 26.179 1 44.59 ? O1N NAP 301 A 1 HETATM 26 O O2N NAP . . . B 2 -27.008 23.532 27.506 1 51.15 ? O2N NAP 301 A 1 HETATM 27 O O5D NAP . . . B 2 -27.049 23.667 24.95 1 52.07 ? O5D NAP 301 A 1 HETATM 28 C C5D NAP . . . B 2 -28.254 24.434 25.077 1 61.03 ? C5D NAP 301 A 1 HETATM 29 C C4D NAP . . . B 2 -28.408 25.472 23.975 1 66.5 ? C4D NAP 301 A 1 HETATM 30 O O4D NAP . . . B 2 -28.13 24.889 22.704 1 68.17 ? O4D NAP 301 A 1 HETATM 31 C C3D NAP . . . B 2 -29.836 26.022 23.903 1 69.28 ? C3D NAP 301 A 1 HETATM 32 O O3D NAP . . . B 2 -29.915 27.329 24.468 1 74.62 ? O3D NAP 301 A 1 HETATM 33 C C2D NAP . . . B 2 -30.199 26.014 22.428 1 72.43 ? C2D NAP 301 A 1 HETATM 34 O O2D NAP . . . B 2 -30.711 27.269 21.936 1 80.08 ? O2D NAP 301 A 1 HETATM 35 C C1D NAP . . . B 2 -28.899 25.631 21.749 1 67.01 ? C1D NAP 301 A 1 HETATM 36 N N1N NAP . . . B 2 -29.136 24.907 20.482 1 67.93 ? N1N NAP 301 A 1 HETATM 37 C C2N NAP . . . B 2 -28.903 25.588 19.359 1 64.96 ? C2N NAP 301 A 1 HETATM 38 C C3N NAP . . . B 2 -29.072 25.035 18.099 1 61.6 ? C3N NAP 301 A 1 HETATM 39 C C7N NAP . . . B 2 -28.774 25.88 16.893 1 59.1 ? C7N NAP 301 A 1 HETATM 40 O O7N NAP . . . B 2 -28.755 25.273 15.827 1 53.49 ? O7N NAP 301 A 1 HETATM 41 N N7N NAP . . . B 2 -28.528 27.225 16.97 1 55.9 ? N7N NAP 301 A 1 HETATM 42 C C4N NAP . . . B 2 -29.511 23.704 17.989 1 66.84 ? C4N NAP 301 A 1 HETATM 43 C C5N NAP . . . B 2 -29.758 23.002 19.166 1 67.84 ? C5N NAP 301 A 1 HETATM 44 C C6N NAP . . . B 2 -29.555 23.632 20.401 1 66.34 ? C6N NAP 301 A 1 HETATM 45 P P2B NAP . . . B 2 -27.364 15.65 32.139 1 58.65 ? P2B NAP 301 A 1 HETATM 46 O O1X NAP . . . B 2 -28.201 16.434 33.135 1 59.84 ? O1X NAP 301 A 1 HETATM 47 O O2X NAP . . . B 2 -28.246 14.711 31.343 1 58.46 ? O2X NAP 301 A 1 HETATM 48 O O3X NAP . . . B 2 -26.04 15.075 32.6 1 51.45 ? O3X NAP 301 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 347 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #