data_5SD1 # _model_server_result.job_id EWrt0mF06fgKJWUmJUpjvg _model_server_result.datetime_utc '2024-10-10 12:14:19' _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 5sd1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5SD1 # _exptl.entry_id 5SD1 _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 90 _cell.entry_id 5SD1 _cell.length_a 29.45 _cell.length_b 67.32 _cell.length_c 72.29 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5SD1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 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 304 n n PA O2A NAP sing 305 n n PA O5B NAP sing 306 n n PA O3 NAP sing 307 n n O2A HOA2 NAP sing 308 n n O5B C5B NAP sing 309 n n C5B C4B NAP sing 310 n n C5B H51A NAP sing 311 n n C5B H52A NAP sing 312 n n C4B O4B NAP sing 313 n n C4B C3B NAP sing 314 n n C4B H4B NAP sing 315 n n O4B C1B NAP sing 316 n n C3B O3B NAP sing 317 n n C3B C2B NAP sing 318 n n C3B H3B NAP sing 319 n n O3B HO3A NAP sing 320 n n C2B O2B NAP sing 321 n n C2B C1B NAP sing 322 n n C2B H2B NAP sing 323 n n O2B P2B NAP sing 324 n n C1B N9A NAP sing 325 n n C1B H1B NAP sing 326 n n N9A C8A NAP sing 327 n y N9A C4A NAP sing 328 n y C8A N7A NAP doub 329 n y C8A H8A NAP sing 330 n n N7A C5A NAP sing 331 n y C5A C6A NAP sing 332 n y C5A C4A NAP doub 333 n y C6A N6A NAP sing 334 n n C6A N1A NAP doub 335 n y N6A H61A NAP sing 336 n n N6A H62A NAP sing 337 n n N1A C2A NAP sing 338 n y C2A N3A NAP doub 339 n y C2A H2A NAP sing 340 n n N3A C4A NAP sing 341 n y O3 PN NAP sing 342 n n PN O1N NAP doub 343 n n PN O2N NAP sing 344 n n PN O5D NAP sing 345 n n O5D C5D NAP sing 346 n n C5D C4D NAP sing 347 n n C5D H51N NAP sing 348 n n C5D H52N NAP sing 349 n n C4D O4D NAP sing 350 n n C4D C3D NAP sing 351 n n C4D H4D NAP sing 352 n n O4D C1D NAP sing 353 n n C3D O3D NAP sing 354 n n C3D C2D NAP sing 355 n n C3D H3D NAP sing 356 n n O3D HO3N NAP sing 357 n n C2D O2D NAP sing 358 n n C2D C1D NAP sing 359 n n C2D H2D NAP sing 360 n n O2D HO2N NAP sing 361 n n C1D N1N NAP sing 362 n n C1D H1D NAP sing 363 n n N1N C2N NAP sing 364 n y N1N C6N NAP doub 365 n y C2N C3N NAP doub 366 n y C2N H2N NAP sing 367 n n C3N C7N NAP sing 368 n n C3N C4N NAP sing 369 n y C7N O7N NAP doub 370 n n C7N N7N NAP sing 371 n n N7N H71N NAP sing 372 n n N7N H72N NAP sing 373 n n C4N C5N NAP doub 374 n y C4N H4N NAP sing 375 n n C5N C6N NAP sing 376 n y C5N H5N NAP sing 377 n n C6N H6N NAP sing 378 n n P2B O1X NAP doub 379 n n P2B O2X NAP sing 380 n n P2B O3X NAP sing 381 n n O2X HOP2 NAP sing 382 n n O3X HOP3 NAP sing 383 n n # _atom_sites.entry_id 5SD1 _atom_sites.fract_transf_matrix[1][1] 0.033956 _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] 0.014854 _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] 0.013833 _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 1 201 160 NAP NAP . C 3 I6J A 1 202 161 I6J LIG . D 4 EDO A 1 203 163 EDO EDO . E 4 EDO A 1 204 164 EDO EDO . F 5 FMT A 1 205 165 FMT FMT . G 6 HOH A 1 301 100 HOH HOH . G 6 HOH A 2 302 99 HOH HOH . G 6 HOH A 3 303 6 HOH HOH . G 6 HOH A 4 304 39 HOH HOH . G 6 HOH A 5 305 75 HOH HOH . G 6 HOH A 6 306 56 HOH HOH . G 6 HOH A 7 307 140 HOH HOH . G 6 HOH A 8 308 151 HOH HOH . G 6 HOH A 9 309 72 HOH HOH . G 6 HOH A 10 310 148 HOH HOH . G 6 HOH A 11 311 93 HOH HOH . G 6 HOH A 12 312 94 HOH HOH . G 6 HOH A 13 313 32 HOH HOH . G 6 HOH A 14 314 109 HOH HOH . G 6 HOH A 15 315 12 HOH HOH . G 6 HOH A 16 316 62 HOH HOH . G 6 HOH A 17 317 139 HOH HOH . G 6 HOH A 18 318 44 HOH HOH . G 6 HOH A 19 319 76 HOH HOH . G 6 HOH A 20 320 29 HOH HOH . G 6 HOH A 21 321 141 HOH HOH . G 6 HOH A 22 322 11 HOH HOH . G 6 HOH A 23 323 59 HOH HOH . G 6 HOH A 24 324 69 HOH HOH . G 6 HOH A 25 325 52 HOH HOH . G 6 HOH A 26 326 96 HOH HOH . G 6 HOH A 27 327 25 HOH HOH . G 6 HOH A 28 328 37 HOH HOH . G 6 HOH A 29 329 101 HOH HOH . G 6 HOH A 30 330 24 HOH HOH . G 6 HOH A 31 331 49 HOH HOH . G 6 HOH A 32 332 36 HOH HOH . G 6 HOH A 33 333 19 HOH HOH . G 6 HOH A 34 334 74 HOH HOH . G 6 HOH A 35 335 28 HOH HOH . G 6 HOH A 36 336 111 HOH HOH . G 6 HOH A 37 337 15 HOH HOH . G 6 HOH A 38 338 18 HOH HOH . G 6 HOH A 39 339 85 HOH HOH . G 6 HOH A 40 340 38 HOH HOH . G 6 HOH A 41 341 137 HOH HOH . G 6 HOH A 42 342 147 HOH HOH . G 6 HOH A 43 343 58 HOH HOH . G 6 HOH A 44 344 60 HOH HOH . G 6 HOH A 45 345 46 HOH HOH . G 6 HOH A 46 346 35 HOH HOH . G 6 HOH A 47 347 112 HOH HOH . G 6 HOH A 48 348 22 HOH HOH . G 6 HOH A 49 349 122 HOH HOH . G 6 HOH A 50 350 68 HOH HOH . G 6 HOH A 51 351 63 HOH HOH . G 6 HOH A 52 352 17 HOH HOH . G 6 HOH A 53 353 108 HOH HOH . G 6 HOH A 54 354 55 HOH HOH . G 6 HOH A 55 355 20 HOH HOH . G 6 HOH A 56 356 54 HOH HOH . G 6 HOH A 57 357 13 HOH HOH . G 6 HOH A 58 358 4 HOH HOH . G 6 HOH A 59 359 64 HOH HOH . G 6 HOH A 60 360 149 HOH HOH . G 6 HOH A 61 361 155 HOH HOH . G 6 HOH A 62 362 98 HOH HOH . G 6 HOH A 63 363 21 HOH HOH . G 6 HOH A 64 364 129 HOH HOH . G 6 HOH A 65 365 138 HOH HOH . G 6 HOH A 66 366 16 HOH HOH . G 6 HOH A 67 367 27 HOH HOH . G 6 HOH A 68 368 102 HOH HOH . G 6 HOH A 69 369 89 HOH HOH . G 6 HOH A 70 370 26 HOH HOH . G 6 HOH A 71 371 71 HOH HOH . G 6 HOH A 72 372 34 HOH HOH . G 6 HOH A 73 373 82 HOH HOH . G 6 HOH A 74 374 110 HOH HOH . G 6 HOH A 75 375 81 HOH HOH . G 6 HOH A 76 376 152 HOH HOH . G 6 HOH A 77 377 135 HOH HOH . G 6 HOH A 78 378 150 HOH HOH . G 6 HOH A 79 379 41 HOH HOH . G 6 HOH A 80 380 161 HOH HOH . G 6 HOH A 81 381 124 HOH HOH . G 6 HOH A 82 382 23 HOH HOH . G 6 HOH A 83 383 120 HOH HOH . G 6 HOH A 84 384 53 HOH HOH . G 6 HOH A 85 385 113 HOH HOH . G 6 HOH A 86 386 78 HOH HOH . G 6 HOH A 87 387 51 HOH HOH . G 6 HOH A 88 388 92 HOH HOH . G 6 HOH A 89 389 10 HOH HOH . G 6 HOH A 90 390 115 HOH HOH . G 6 HOH A 91 391 128 HOH HOH . G 6 HOH A 92 392 79 HOH HOH . G 6 HOH A 93 393 33 HOH HOH . G 6 HOH A 94 394 132 HOH HOH . G 6 HOH A 95 395 40 HOH HOH . G 6 HOH A 96 396 70 HOH HOH . G 6 HOH A 97 397 7 HOH HOH . G 6 HOH A 98 398 123 HOH HOH . G 6 HOH A 99 399 118 HOH HOH . G 6 HOH A 100 400 143 HOH HOH . G 6 HOH A 101 401 119 HOH HOH . G 6 HOH A 102 402 83 HOH HOH . G 6 HOH A 103 403 42 HOH HOH . G 6 HOH A 104 404 106 HOH HOH . G 6 HOH A 105 405 153 HOH HOH . G 6 HOH A 106 406 9 HOH HOH . G 6 HOH A 107 407 50 HOH HOH . G 6 HOH A 108 408 105 HOH HOH . G 6 HOH A 109 409 77 HOH HOH . G 6 HOH A 110 410 30 HOH HOH . G 6 HOH A 111 411 145 HOH HOH . G 6 HOH A 112 412 114 HOH HOH . G 6 HOH A 113 413 95 HOH HOH . G 6 HOH A 114 414 73 HOH HOH . G 6 HOH A 115 415 86 HOH HOH . G 6 HOH A 116 416 157 HOH HOH . G 6 HOH A 117 417 45 HOH HOH . G 6 HOH A 118 418 80 HOH HOH . G 6 HOH A 119 419 144 HOH HOH . G 6 HOH A 120 420 8 HOH HOH . G 6 HOH A 121 421 136 HOH HOH . G 6 HOH A 122 422 146 HOH HOH . G 6 HOH A 123 423 121 HOH HOH . G 6 HOH A 124 424 97 HOH HOH . G 6 HOH A 125 425 125 HOH HOH . G 6 HOH A 126 426 91 HOH HOH . G 6 HOH A 127 427 158 HOH HOH . G 6 HOH A 128 428 134 HOH HOH . G 6 HOH A 129 429 104 HOH HOH . G 6 HOH A 130 430 107 HOH HOH . G 6 HOH A 131 431 88 HOH HOH . G 6 HOH A 132 432 84 HOH HOH . G 6 HOH A 133 433 156 HOH HOH . G 6 HOH A 134 434 159 HOH HOH . G 6 HOH A 135 435 117 HOH HOH . G 6 HOH A 136 436 103 HOH HOH . G 6 HOH A 137 437 160 HOH HOH . G 6 HOH A 138 438 154 HOH HOH . G 6 HOH A 139 439 61 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 18.019 -3.129 12.14 1 15.39 ? PA NAP 201 A 1 HETATM 2 O O1A NAP . . . B 2 18.821 -1.891 12.116 1 11.82 ? O1A NAP 201 A 1 HETATM 3 O O2A NAP . . . B 2 16.509 -2.882 12.133 1 12.32 ? O2A NAP 201 A 1 HETATM 4 O O5B NAP . . . B 2 18.308 -4.105 10.903 1 15.29 ? O5B NAP 201 A 1 HETATM 5 C C5B NAP . . . B 2 19.624 -4.692 10.878 1 14.56 ? C5B NAP 201 A 1 HETATM 6 C C4B NAP . . . B 2 19.877 -5.386 9.567 1 11.01 ? C4B NAP 201 A 1 HETATM 7 O O4B NAP . . . B 2 19.984 -4.408 8.504 1 17.49 ? O4B NAP 201 A 1 HETATM 8 C C3B NAP . . . B 2 21.195 -6.156 9.522 1 14.3 ? C3B NAP 201 A 1 HETATM 9 O O3B NAP . . . B 2 21.072 -7.418 10.168 1 14.07 ? O3B NAP 201 A 1 HETATM 10 C C2B NAP . . . B 2 21.359 -6.254 8.007 1 17.64 ? C2B NAP 201 A 1 HETATM 11 O O2B NAP . . . B 2 20.472 -7.258 7.485 1 13.18 ? O2B NAP 201 A 1 HETATM 12 C C1B NAP . . . B 2 20.897 -4.881 7.525 1 18.64 ? C1B NAP 201 A 1 HETATM 13 N N9A NAP . . . B 2 21.996 -3.921 7.377 1 20.2 ? N9A NAP 201 A 1 HETATM 14 C C8A NAP . . . B 2 22.635 -3.228 8.37 1 16.08 ? C8A NAP 201 A 1 HETATM 15 N N7A NAP . . . B 2 23.621 -2.474 7.946 1 20.3 ? N7A NAP 201 A 1 HETATM 16 C C5A NAP . . . B 2 23.632 -2.687 6.575 1 18.61 ? C5A NAP 201 A 1 HETATM 17 C C6A NAP . . . B 2 24.44 -2.178 5.542 1 21.66 ? C6A NAP 201 A 1 HETATM 18 N N6A NAP . . . B 2 25.487 -1.374 5.741 1 20.04 ? N6A NAP 201 A 1 HETATM 19 N N1A NAP . . . B 2 24.169 -2.575 4.281 1 20.29 ? N1A NAP 201 A 1 HETATM 20 C C2A NAP . . . B 2 23.171 -3.44 4.079 1 17.06 ? C2A NAP 201 A 1 HETATM 21 N N3A NAP . . . B 2 22.354 -3.999 4.973 1 12.83 ? N3A NAP 201 A 1 HETATM 22 C C4A NAP . . . B 2 22.632 -3.576 6.211 1 20.39 ? C4A NAP 201 A 1 HETATM 23 O O3 NAP . . . B 2 18.376 -3.968 13.445 1 11.55 ? O3 NAP 201 A 1 HETATM 24 P PN NAP . . . B 2 18.552 -3.596 14.987 1 14.19 ? PN NAP 201 A 1 HETATM 25 O O1N NAP . . . B 2 19.617 -2.573 15.091 1 15.19 ? O1N NAP 201 A 1 HETATM 26 O O2N NAP . . . B 2 18.68 -4.868 15.73 1 12.34 ? O2N NAP 201 A 1 HETATM 27 O O5D NAP . . . B 2 17.146 -2.918 15.301 1 14.35 ? O5D NAP 201 A 1 HETATM 28 C C5D NAP . . . B 2 15.954 -3.729 15.401 1 14.27 ? C5D NAP 201 A 1 HETATM 29 C C4D NAP . . . B 2 15.275 -3.467 16.727 1 16.27 ? C4D NAP 201 A 1 HETATM 30 O O4D NAP . . . B 2 14.872 -2.08 16.83 1 14.58 ? O4D NAP 201 A 1 HETATM 31 C C3D NAP . . . B 2 14.01 -4.291 16.985 1 12.43 ? C3D NAP 201 A 1 HETATM 32 O O3D NAP . . . B 2 13.915 -4.536 18.38 1 16.56 ? O3D NAP 201 A 1 HETATM 33 C C2D NAP . . . B 2 12.897 -3.328 16.585 1 13.65 ? C2D NAP 201 A 1 HETATM 34 O O2D NAP . . . B 2 11.699 -3.619 17.292 1 17.16 ? O2D NAP 201 A 1 HETATM 35 C C1D NAP . . . B 2 13.487 -2.014 17.085 1 15.82 ? C1D NAP 201 A 1 HETATM 36 N N1N NAP . . . B 2 12.915 -0.744 16.397 1 16.99 ? N1N NAP 201 A 1 HETATM 37 C C2N NAP . . . B 2 12.579 0.267 17.215 1 12.28 ? C2N NAP 201 A 1 HETATM 38 C C3N NAP . . . B 2 12.168 1.478 16.691 1 9.89 ? C3N NAP 201 A 1 HETATM 39 C C7N NAP . . . B 2 11.745 2.612 17.58 1 13.54 ? C7N NAP 201 A 1 HETATM 40 O O7N NAP . . . B 2 11.602 3.744 17.093 1 12.28 ? O7N NAP 201 A 1 HETATM 41 N N7N NAP . . . B 2 11.618 2.373 18.888 1 11.47 ? N7N NAP 201 A 1 HETATM 42 C C4N NAP . . . B 2 12.079 1.608 15.306 1 13.72 ? C4N NAP 201 A 1 HETATM 43 C C5N NAP . . . B 2 12.396 0.537 14.49 1 16.91 ? C5N NAP 201 A 1 HETATM 44 C C6N NAP . . . B 2 12.82 -0.643 15.054 1 11.58 ? C6N NAP 201 A 1 HETATM 45 P P2B NAP . . . B 2 20.963 -8.748 7.121 1 13.54 ? P2B NAP 201 A 1 HETATM 46 O O1X NAP . . . B 2 19.807 -9.413 6.456 1 13.85 ? O1X NAP 201 A 1 HETATM 47 O O2X NAP . . . B 2 22.177 -8.579 6.22 1 12.81 ? O2X NAP 201 A 1 HETATM 48 O O3X NAP . . . B 2 21.302 -9.432 8.436 1 15.24 ? O3X NAP 201 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #