data_6VVB # _model_server_result.job_id oyJARLjY_oFePBaz3-u33w _model_server_result.datetime_utc '2024-11-14 01:39:50' _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 6vvb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 6VVB # _exptl.entry_id 6VVB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 4 _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 99.89 _cell.angle_gamma 90 _cell.entry_id 6VVB _cell.length_a 67.86 _cell.length_b 73.73 _cell.length_c 36.78 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VVB _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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 4 _struct_asym.id D _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 237 n n PA O2A NAP sing 238 n n PA O5B NAP sing 239 n n PA O3 NAP sing 240 n n O2A HOA2 NAP sing 241 n n O5B C5B NAP sing 242 n n C5B C4B NAP sing 243 n n C5B H51A NAP sing 244 n n C5B H52A NAP sing 245 n n C4B O4B NAP sing 246 n n C4B C3B NAP sing 247 n n C4B H4B NAP sing 248 n n O4B C1B NAP sing 249 n n C3B O3B NAP sing 250 n n C3B C2B NAP sing 251 n n C3B H3B NAP sing 252 n n O3B HO3A NAP sing 253 n n C2B O2B NAP sing 254 n n C2B C1B NAP sing 255 n n C2B H2B NAP sing 256 n n O2B P2B NAP sing 257 n n C1B N9A NAP sing 258 n n C1B H1B NAP sing 259 n n N9A C8A NAP sing 260 n y N9A C4A NAP sing 261 n y C8A N7A NAP doub 262 n y C8A H8A NAP sing 263 n n N7A C5A NAP sing 264 n y C5A C6A NAP sing 265 n y C5A C4A NAP doub 266 n y C6A N6A NAP sing 267 n n C6A N1A NAP doub 268 n y N6A H61A NAP sing 269 n n N6A H62A NAP sing 270 n n N1A C2A NAP sing 271 n y C2A N3A NAP doub 272 n y C2A H2A NAP sing 273 n n N3A C4A NAP sing 274 n y O3 PN NAP sing 275 n n PN O1N NAP doub 276 n n PN O2N NAP sing 277 n n PN O5D NAP sing 278 n n O5D C5D NAP sing 279 n n C5D C4D NAP sing 280 n n C5D H51N NAP sing 281 n n C5D H52N NAP sing 282 n n C4D O4D NAP sing 283 n n C4D C3D NAP sing 284 n n C4D H4D NAP sing 285 n n O4D C1D NAP sing 286 n n C3D O3D NAP sing 287 n n C3D C2D NAP sing 288 n n C3D H3D NAP sing 289 n n O3D HO3N NAP sing 290 n n C2D O2D NAP sing 291 n n C2D C1D NAP sing 292 n n C2D H2D NAP sing 293 n n O2D HO2N NAP sing 294 n n C1D N1N NAP sing 295 n n C1D H1D NAP sing 296 n n N1N C2N NAP sing 297 n y N1N C6N NAP doub 298 n y C2N C3N NAP doub 299 n y C2N H2N NAP sing 300 n n C3N C7N NAP sing 301 n n C3N C4N NAP sing 302 n y C7N O7N NAP doub 303 n n C7N N7N NAP sing 304 n n N7N H71N NAP sing 305 n n N7N H72N NAP sing 306 n n C4N C5N NAP doub 307 n y C4N H4N NAP sing 308 n n C5N C6N NAP sing 309 n y C5N H5N NAP sing 310 n n C6N H6N NAP sing 311 n n P2B O1X NAP doub 312 n n P2B O2X NAP sing 313 n n P2B O3X NAP sing 314 n n O2X HOP2 NAP sing 315 n n O3X HOP3 NAP sing 316 n n # _atom_sites.entry_id 6VVB _atom_sites.fract_transf_matrix[1][1] 0.014736 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002569 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013563 _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] 0.027599 _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 RQ4 A 1 201 201 RQ4 DRG . C 3 P33 A 1 202 301 P33 LIG . D 4 NAP A 1 203 401 NAP NDP . E 5 HOH A 1 301 173 HOH HOH . E 5 HOH A 2 302 109 HOH HOH . E 5 HOH A 3 303 71 HOH HOH . E 5 HOH A 4 304 147 HOH HOH . E 5 HOH A 5 305 131 HOH HOH . E 5 HOH A 6 306 152 HOH HOH . E 5 HOH A 7 307 13 HOH HOH . E 5 HOH A 8 308 103 HOH HOH . E 5 HOH A 9 309 163 HOH HOH . E 5 HOH A 10 310 41 HOH HOH . E 5 HOH A 11 311 85 HOH HOH . E 5 HOH A 12 312 43 HOH HOH . E 5 HOH A 13 313 27 HOH HOH . E 5 HOH A 14 314 28 HOH HOH . E 5 HOH A 15 315 138 HOH HOH . E 5 HOH A 16 316 69 HOH HOH . E 5 HOH A 17 317 31 HOH HOH . E 5 HOH A 18 318 25 HOH HOH . E 5 HOH A 19 319 117 HOH HOH . E 5 HOH A 20 320 164 HOH HOH . E 5 HOH A 21 321 54 HOH HOH . E 5 HOH A 22 322 51 HOH HOH . E 5 HOH A 23 323 97 HOH HOH . E 5 HOH A 24 324 8 HOH HOH . E 5 HOH A 25 325 21 HOH HOH . E 5 HOH A 26 326 58 HOH HOH . E 5 HOH A 27 327 63 HOH HOH . E 5 HOH A 28 328 160 HOH HOH . E 5 HOH A 29 329 29 HOH HOH . E 5 HOH A 30 330 99 HOH HOH . E 5 HOH A 31 331 91 HOH HOH . E 5 HOH A 32 332 1 HOH HOH . E 5 HOH A 33 333 6 HOH HOH . E 5 HOH A 34 334 84 HOH HOH . E 5 HOH A 35 335 5 HOH HOH . E 5 HOH A 36 336 10 HOH HOH . E 5 HOH A 37 337 33 HOH HOH . E 5 HOH A 38 338 128 HOH HOH . E 5 HOH A 39 339 32 HOH HOH . E 5 HOH A 40 340 20 HOH HOH . E 5 HOH A 41 341 48 HOH HOH . E 5 HOH A 42 342 74 HOH HOH . E 5 HOH A 43 343 82 HOH HOH . E 5 HOH A 44 344 90 HOH HOH . E 5 HOH A 45 345 3 HOH HOH . E 5 HOH A 46 346 108 HOH HOH . E 5 HOH A 47 347 36 HOH HOH . E 5 HOH A 48 348 171 HOH HOH . E 5 HOH A 49 349 14 HOH HOH . E 5 HOH A 50 350 22 HOH HOH . E 5 HOH A 51 351 107 HOH HOH . E 5 HOH A 52 352 44 HOH HOH . E 5 HOH A 53 353 60 HOH HOH . E 5 HOH A 54 354 38 HOH HOH . E 5 HOH A 55 355 40 HOH HOH . E 5 HOH A 56 356 65 HOH HOH . E 5 HOH A 57 357 11 HOH HOH . E 5 HOH A 58 358 161 HOH HOH . E 5 HOH A 59 359 106 HOH HOH . E 5 HOH A 60 360 105 HOH HOH . E 5 HOH A 61 361 18 HOH HOH . E 5 HOH A 62 362 61 HOH HOH . E 5 HOH A 63 363 112 HOH HOH . E 5 HOH A 64 364 42 HOH HOH . E 5 HOH A 65 365 169 HOH HOH . E 5 HOH A 66 366 53 HOH HOH . E 5 HOH A 67 367 94 HOH HOH . E 5 HOH A 68 368 111 HOH HOH . E 5 HOH A 69 369 35 HOH HOH . E 5 HOH A 70 370 95 HOH HOH . E 5 HOH A 71 371 15 HOH HOH . E 5 HOH A 72 372 72 HOH HOH . E 5 HOH A 73 373 123 HOH HOH . E 5 HOH A 74 374 66 HOH HOH . E 5 HOH A 75 375 87 HOH HOH . E 5 HOH A 76 376 56 HOH HOH . E 5 HOH A 77 377 50 HOH HOH . E 5 HOH A 78 378 7 HOH HOH . E 5 HOH A 79 379 2 HOH HOH . E 5 HOH A 80 380 73 HOH HOH . E 5 HOH A 81 381 17 HOH HOH . E 5 HOH A 82 382 59 HOH HOH . E 5 HOH A 83 383 49 HOH HOH . E 5 HOH A 84 384 96 HOH HOH . E 5 HOH A 85 385 159 HOH HOH . E 5 HOH A 86 386 167 HOH HOH . E 5 HOH A 87 387 133 HOH HOH . E 5 HOH A 88 388 98 HOH HOH . E 5 HOH A 89 389 118 HOH HOH . E 5 HOH A 90 390 26 HOH HOH . E 5 HOH A 91 391 77 HOH HOH . E 5 HOH A 92 392 141 HOH HOH . E 5 HOH A 93 393 113 HOH HOH . E 5 HOH A 94 394 45 HOH HOH . E 5 HOH A 95 395 81 HOH HOH . E 5 HOH A 96 396 4 HOH HOH . E 5 HOH A 97 397 46 HOH HOH . E 5 HOH A 98 398 57 HOH HOH . E 5 HOH A 99 399 16 HOH HOH . E 5 HOH A 100 400 52 HOH HOH . E 5 HOH A 101 401 166 HOH HOH . E 5 HOH A 102 402 140 HOH HOH . E 5 HOH A 103 403 24 HOH HOH . E 5 HOH A 104 404 110 HOH HOH . E 5 HOH A 105 405 121 HOH HOH . E 5 HOH A 106 406 89 HOH HOH . E 5 HOH A 107 407 47 HOH HOH . E 5 HOH A 108 408 23 HOH HOH . E 5 HOH A 109 409 62 HOH HOH . E 5 HOH A 110 410 92 HOH HOH . E 5 HOH A 111 411 168 HOH HOH . E 5 HOH A 112 412 102 HOH HOH . E 5 HOH A 113 413 68 HOH HOH . E 5 HOH A 114 414 37 HOH HOH . E 5 HOH A 115 415 80 HOH HOH . E 5 HOH A 116 416 67 HOH HOH . E 5 HOH A 117 417 126 HOH HOH . E 5 HOH A 118 418 165 HOH HOH . E 5 HOH A 119 419 83 HOH HOH . E 5 HOH A 120 420 125 HOH HOH . E 5 HOH A 121 421 143 HOH HOH . E 5 HOH A 122 422 100 HOH HOH . E 5 HOH A 123 423 19 HOH HOH . E 5 HOH A 124 424 132 HOH HOH . E 5 HOH A 125 425 170 HOH HOH . E 5 HOH A 126 426 64 HOH HOH . E 5 HOH A 127 427 136 HOH HOH . E 5 HOH A 128 428 153 HOH HOH . E 5 HOH A 129 429 116 HOH HOH . E 5 HOH A 130 430 162 HOH HOH . E 5 HOH A 131 431 139 HOH HOH . E 5 HOH A 132 432 12 HOH HOH . E 5 HOH A 133 433 75 HOH HOH . E 5 HOH A 134 434 172 HOH HOH . E 5 HOH A 135 435 76 HOH HOH . E 5 HOH A 136 436 119 HOH HOH . E 5 HOH A 137 437 9 HOH HOH . E 5 HOH A 138 438 129 HOH HOH . E 5 HOH A 139 439 130 HOH HOH . E 5 HOH A 140 440 175 HOH HOH . E 5 HOH A 141 441 158 HOH HOH . E 5 HOH A 142 442 30 HOH HOH . E 5 HOH A 143 443 114 HOH HOH . E 5 HOH A 144 444 156 HOH HOH . E 5 HOH A 145 445 174 HOH HOH . E 5 HOH A 146 446 86 HOH HOH . E 5 HOH A 147 447 55 HOH HOH . E 5 HOH A 148 448 93 HOH HOH . E 5 HOH A 149 449 157 HOH HOH . E 5 HOH A 150 450 104 HOH HOH . E 5 HOH A 151 451 149 HOH HOH . E 5 HOH A 152 452 122 HOH HOH . E 5 HOH A 153 453 79 HOH HOH . E 5 HOH A 154 454 134 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 . . . D 4 12.788 3.133 14.913 1 12.71 ? PA NAP 203 A 1 HETATM 2 O O1A NAP . . . D 4 12.599 4.121 13.778 1 14.25 ? O1A NAP 203 A 1 HETATM 3 O O2A NAP . . . D 4 13.711 1.998 14.675 1 12.82 -1 O2A NAP 203 A 1 HETATM 4 O O5B NAP . . . D 4 13.287 3.878 16.31 1 13.63 ? O5B NAP 203 A 1 HETATM 5 C C5B NAP . . . D 4 12.434 4.876 16.903 1 13.95 ? C5B NAP 203 A 1 HETATM 6 C C4B NAP . . . D 4 13.23 5.57 18.001 1 15.69 ? C4B NAP 203 A 1 HETATM 7 O O4B NAP . . . D 4 14.33 6.419 17.217 1 14.76 ? O4B NAP 203 A 1 HETATM 8 C C3B NAP . . . D 4 12.567 6.483 18.675 1 16.46 ? C3B NAP 203 A 1 HETATM 9 O O3B NAP . . . D 4 11.796 5.899 19.8 1 18.24 ? O3B NAP 203 A 1 HETATM 10 C C2B NAP . . . D 4 13.705 7.408 19.217 1 14.72 ? C2B NAP 203 A 1 HETATM 11 O O2B NAP . . . D 4 14.484 6.778 20.131 1 15.05 ? O2B NAP 203 A 1 HETATM 12 C C1B NAP . . . D 4 14.544 7.523 17.954 1 13.93 ? C1B NAP 203 A 1 HETATM 13 N N9A NAP . . . D 4 14.144 8.712 17.209 1 15.22 ? N9A NAP 203 A 1 HETATM 14 C C8A NAP . . . D 4 13.09 8.64 16.39 1 22.67 ? C8A NAP 203 A 1 HETATM 15 N N7A NAP . . . D 4 12.942 9.864 15.868 1 30.9 ? N7A NAP 203 A 1 HETATM 16 C C5A NAP . . . D 4 13.895 10.656 16.382 1 26.15 ? C5A NAP 203 A 1 HETATM 17 C C6A NAP . . . D 4 14.204 11.97 16.201 1 42.5 ? C6A NAP 203 A 1 HETATM 18 N N6A NAP . . . D 4 13.811 13.207 15.476 1 35.18 ? N6A NAP 203 A 1 HETATM 19 N N1A NAP . . . D 4 15.229 12.494 16.86 1 29.27 ? N1A NAP 203 A 1 HETATM 20 C C2A NAP . . . D 4 15.971 11.751 17.709 1 22.79 ? C2A NAP 203 A 1 HETATM 21 N N3A NAP . . . D 4 15.678 10.448 17.892 1 22.09 ? N3A NAP 203 A 1 HETATM 22 C C4A NAP . . . D 4 14.633 9.94 17.219 1 18.19 ? C4A NAP 203 A 1 HETATM 23 O O3 NAP . . . D 4 11.343 2.591 15.46 1 11.93 ? O3 NAP 203 A 1 HETATM 24 P PN NAP . . . D 4 10.076 2.031 14.61 1 13.41 ? PN NAP 203 A 1 HETATM 25 O O1N NAP . . . D 4 9.164 1.441 15.661 1 15.16 ? O1N NAP 203 A 1 HETATM 26 O O2N NAP . . . D 4 9.469 3.086 13.742 1 13.91 -1 O2N NAP 203 A 1 HETATM 27 O O5D NAP . . . D 4 10.67 0.826 13.657 1 12.44 ? O5D NAP 203 A 1 HETATM 28 C C5D NAP . . . D 4 11.118 -0.349 14.314 1 12.4 ? C5D NAP 203 A 1 HETATM 29 C C4D NAP . . . D 4 10.433 -1.602 13.59 1 13.14 ? C4D NAP 203 A 1 HETATM 30 O O4D NAP . . . D 4 10.981 -1.534 12.156 1 13.72 ? O4D NAP 203 A 1 HETATM 31 C C3D NAP . . . D 4 10.786 -2.744 14.07 1 14.95 ? C3D NAP 203 A 1 HETATM 32 O O3D NAP . . . D 4 9.679 -3.688 13.925 1 14.16 ? O3D NAP 203 A 1 HETATM 33 C C2D NAP . . . D 4 11.975 -3.293 13.075 1 14.98 ? C2D NAP 203 A 1 HETATM 34 O O2D NAP . . . D 4 12.086 -4.765 13.175 1 14.83 ? O2D NAP 203 A 1 HETATM 35 C C1D NAP . . . D 4 11.521 -2.942 11.925 1 13.51 ? C1D NAP 203 A 1 HETATM 36 N N1N NAP . . . D 4 12.546 -2.742 10.89 1 12.19 ? N1N NAP 203 A 1 HETATM 37 C C2N NAP . . . D 4 12.195 -3.207 9.634 1 11.28 ? C2N NAP 203 A 1 HETATM 38 C C3N NAP . . . D 4 13.148 -3.13 8.525 1 10.16 ? C3N NAP 203 A 1 HETATM 39 C C7N NAP . . . D 4 12.703 -3.67 7.22 1 13.8 ? C7N NAP 203 A 1 HETATM 40 O O7N NAP . . . D 4 11.715 -4.341 7.044 1 14.97 ? O7N NAP 203 A 1 HETATM 41 N N7N NAP . . . D 4 13.558 -3.342 6.155 1 9.67 ? N7N NAP 203 A 1 HETATM 42 C C4N NAP . . . D 4 14.596 -2.615 8.685 1 11.92 ? C4N NAP 203 A 1 HETATM 43 C C5N NAP . . . D 4 14.816 -1.913 10.043 1 13.83 ? C5N NAP 203 A 1 HETATM 44 C C6N NAP . . . D 4 13.773 -2.049 11.15 1 13.63 ? C6N NAP 203 A 1 HETATM 45 P P2B NAP . . . D 4 14.307 7.071 21.761 1 19.34 ? P2B NAP 203 A 1 HETATM 46 O O1X NAP . . . D 4 15.419 6.314 22.415 1 18.86 ? O1X NAP 203 A 1 HETATM 47 O O2X NAP . . . D 4 12.95 6.52 22.112 1 22.96 -1 O2X NAP 203 A 1 HETATM 48 O O3X NAP . . . D 4 14.348 8.555 21.981 1 21.55 -1 O3X NAP 203 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 48 #