data_4FDA # _model_server_result.job_id iEG99MOmDGyAJxo6X8JIHw _model_server_result.datetime_utc '2024-11-05 00:36:35' _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 4fda # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 4FDA # _exptl.entry_id 4FDA _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 4FDA _cell.length_a 128.73 _cell.length_b 128.73 _cell.length_c 40.65 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4FDA _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 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' 8_555 -y,-x,-z+1/2 0 -1 0 -1 0 0 0 0 -1 0 0 20.325 # _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 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 4FDA _atom_sites.fract_transf_matrix[1][1] 0.007768 _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] 0.007768 _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] 0.0246 _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 1 NAP NAP . C 3 HOH A 1 401 1 HOH HOH . C 3 HOH A 2 402 2 HOH HOH . C 3 HOH A 3 403 3 HOH HOH . C 3 HOH A 4 404 4 HOH HOH . C 3 HOH A 5 405 5 HOH HOH . C 3 HOH A 6 406 6 HOH HOH . C 3 HOH A 7 407 7 HOH HOH . C 3 HOH A 8 408 8 HOH HOH . C 3 HOH A 9 409 9 HOH HOH . C 3 HOH A 10 410 10 HOH HOH . C 3 HOH A 11 411 12 HOH HOH . C 3 HOH A 12 412 13 HOH HOH . C 3 HOH A 13 413 14 HOH HOH . C 3 HOH A 14 414 15 HOH HOH . C 3 HOH A 15 415 16 HOH HOH . C 3 HOH A 16 416 17 HOH HOH . C 3 HOH A 17 417 18 HOH HOH . C 3 HOH A 18 418 19 HOH HOH . C 3 HOH A 19 419 20 HOH HOH . C 3 HOH A 20 420 21 HOH HOH . C 3 HOH A 21 421 22 HOH HOH . C 3 HOH A 22 422 23 HOH HOH . C 3 HOH A 23 423 24 HOH HOH . C 3 HOH A 24 424 25 HOH HOH . C 3 HOH A 25 425 26 HOH HOH . C 3 HOH A 26 426 27 HOH HOH . C 3 HOH A 27 427 28 HOH HOH . C 3 HOH A 28 428 29 HOH HOH . C 3 HOH A 29 429 30 HOH HOH . C 3 HOH A 30 430 31 HOH HOH . C 3 HOH A 31 431 32 HOH HOH . C 3 HOH A 32 432 33 HOH HOH . C 3 HOH A 33 433 34 HOH HOH . C 3 HOH A 34 434 35 HOH HOH . C 3 HOH A 35 435 36 HOH HOH . C 3 HOH A 36 436 37 HOH HOH . C 3 HOH A 37 437 38 HOH HOH . C 3 HOH A 38 438 39 HOH HOH . C 3 HOH A 39 439 41 HOH HOH . C 3 HOH A 40 440 42 HOH HOH . C 3 HOH A 41 441 43 HOH HOH . C 3 HOH A 42 442 44 HOH HOH . C 3 HOH A 43 443 45 HOH HOH . C 3 HOH A 44 444 46 HOH HOH . C 3 HOH A 45 445 47 HOH HOH . C 3 HOH A 46 446 48 HOH HOH . C 3 HOH A 47 447 49 HOH HOH . C 3 HOH A 48 448 50 HOH HOH . C 3 HOH A 49 449 51 HOH HOH . C 3 HOH A 50 450 52 HOH HOH . C 3 HOH A 51 451 53 HOH HOH . C 3 HOH A 52 452 54 HOH HOH . C 3 HOH A 53 453 55 HOH HOH . C 3 HOH A 54 454 56 HOH HOH . C 3 HOH A 55 455 57 HOH HOH . C 3 HOH A 56 456 58 HOH HOH . C 3 HOH A 57 457 59 HOH HOH . C 3 HOH A 58 458 60 HOH HOH . C 3 HOH A 59 459 61 HOH HOH . C 3 HOH A 60 460 62 HOH HOH . C 3 HOH A 61 461 63 HOH HOH . C 3 HOH A 62 462 64 HOH HOH . C 3 HOH A 63 463 65 HOH HOH . C 3 HOH A 64 464 66 HOH HOH . C 3 HOH A 65 465 67 HOH HOH . C 3 HOH A 66 466 68 HOH HOH . C 3 HOH A 67 467 69 HOH HOH . C 3 HOH A 68 468 70 HOH HOH . C 3 HOH A 69 469 71 HOH HOH . C 3 HOH A 70 470 72 HOH HOH . C 3 HOH A 71 471 73 HOH HOH . C 3 HOH A 72 472 74 HOH HOH . C 3 HOH A 73 473 75 HOH HOH . C 3 HOH A 74 474 76 HOH HOH . C 3 HOH A 75 475 77 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 -44.442 21.131 19.119 1 33.8 ? PA NAP 301 A 1 HETATM 2 O O1A NAP . . . B 2 -44.942 21.741 17.943 1 33.82 ? O1A NAP 301 A 1 HETATM 3 O O2A NAP . . . B 2 -45.528 20.761 20.007 1 34.16 ? O2A NAP 301 A 1 HETATM 4 O O5B NAP . . . B 2 -43.52 19.898 18.823 1 30.31 ? O5B NAP 301 A 1 HETATM 5 C C5B NAP . . . B 2 -42.396 19.998 17.99 1 24.81 ? C5B NAP 301 A 1 HETATM 6 C C4B NAP . . . B 2 -42.444 19.082 16.782 1 20.8 ? C4B NAP 301 A 1 HETATM 7 O O4B NAP . . . B 2 -41.234 19.24 16.092 1 17.99 ? O4B NAP 301 A 1 HETATM 8 C C3B NAP . . . B 2 -42.604 17.608 17.184 1 19.27 ? C3B NAP 301 A 1 HETATM 9 O O3B NAP . . . B 2 -43.438 16.976 16.28 1 17.22 ? O3B NAP 301 A 1 HETATM 10 C C2B NAP . . . B 2 -41.189 17.137 17.117 1 18.71 ? C2B NAP 301 A 1 HETATM 11 O O2B NAP . . . B 2 -41.015 15.735 17.013 1 19.94 ? O2B NAP 301 A 1 HETATM 12 C C1B NAP . . . B 2 -40.595 18.037 16.011 1 16.42 ? C1B NAP 301 A 1 HETATM 13 N N9A NAP . . . B 2 -39.16 18.068 16.218 1 14.7 ? N9A NAP 301 A 1 HETATM 14 C C8A NAP . . . B 2 -38.544 18.486 17.279 1 15.16 ? C8A NAP 301 A 1 HETATM 15 N N7A NAP . . . B 2 -37.265 18.279 17.182 1 14.25 ? N7A NAP 301 A 1 HETATM 16 C C5A NAP . . . B 2 -37.001 17.715 16.045 1 13.68 ? C5A NAP 301 A 1 HETATM 17 C C6A NAP . . . B 2 -35.824 17.211 15.369 1 13.14 ? C6A NAP 301 A 1 HETATM 18 N N6A NAP . . . B 2 -34.616 17.309 15.888 1 13.81 ? N6A NAP 301 A 1 HETATM 19 N N1A NAP . . . B 2 -36.006 16.671 14.194 1 11.95 ? N1A NAP 301 A 1 HETATM 20 C C2A NAP . . . B 2 -37.202 16.557 13.692 1 12.91 ? C2A NAP 301 A 1 HETATM 21 N N3A NAP . . . B 2 -38.32 16.975 14.22 1 12.64 ? N3A NAP 301 A 1 HETATM 22 C C4A NAP . . . B 2 -38.286 17.543 15.404 1 13.74 ? C4A NAP 301 A 1 HETATM 23 O O3 NAP . . . B 2 -43.463 22.154 19.691 1 35.63 ? O3 NAP 301 A 1 HETATM 24 P PN NAP . . . B 2 -43.316 22.615 21.158 1 37.36 ? PN NAP 301 A 1 HETATM 25 O O1N NAP . . . B 2 -42.136 21.954 21.576 1 37.06 ? O1N NAP 301 A 1 HETATM 26 O O2N NAP . . . B 2 -44.497 22.406 21.939 1 37.51 ? O2N NAP 301 A 1 HETATM 27 O O5D NAP . . . B 2 -43.225 24.2 20.919 1 37.94 ? O5D NAP 301 A 1 HETATM 28 C C5D NAP . . . B 2 -44.287 25.088 21.299 1 38.5 ? C5D NAP 301 A 1 HETATM 29 C C4D NAP . . . B 2 -44.242 26.615 20.984 1 39.22 ? C4D NAP 301 A 1 HETATM 30 O O4D NAP . . . B 2 -44.855 27.621 21.835 1 39.21 ? O4D NAP 301 A 1 HETATM 31 C C3D NAP . . . B 2 -42.89 27.168 21.078 1 39.74 ? C3D NAP 301 A 1 HETATM 32 O O3D NAP . . . B 2 -42.167 26.482 20.188 1 39.82 ? O3D NAP 301 A 1 HETATM 33 C C2D NAP . . . B 2 -43.1 28.598 20.723 1 39.83 ? C2D NAP 301 A 1 HETATM 34 O O2D NAP . . . B 2 -43.882 28.845 19.571 1 40.51 ? O2D NAP 301 A 1 HETATM 35 C C1D NAP . . . B 2 -43.995 28.823 21.868 1 39.55 ? C1D NAP 301 A 1 HETATM 36 N N1N NAP . . . B 2 -42.807 28.929 22.731 1 39.12 ? N1N NAP 301 A 1 HETATM 37 C C2N NAP . . . B 2 -41.475 28.754 22.342 1 37.9 ? C2N NAP 301 A 1 HETATM 38 C C3N NAP . . . B 2 -40.395 28.902 23.259 1 37.38 ? C3N NAP 301 A 1 HETATM 39 C C7N NAP . . . B 2 -38.884 28.763 23.169 1 37 ? C7N NAP 301 A 1 HETATM 40 O O7N NAP . . . B 2 -38.232 28.747 22.192 1 36.21 ? O7N NAP 301 A 1 HETATM 41 N N7N NAP . . . B 2 -38.186 28.721 24.274 1 36.65 ? N7N NAP 301 A 1 HETATM 42 C C4N NAP . . . B 2 -40.703 29.291 24.517 1 37.67 ? C4N NAP 301 A 1 HETATM 43 C C5N NAP . . . B 2 -42.013 29.504 24.822 1 38.34 ? C5N NAP 301 A 1 HETATM 44 C C6N NAP . . . B 2 -43.042 29.324 23.943 1 38.58 ? C6N NAP 301 A 1 HETATM 45 P P2B NAP . . . B 2 -40.78 14.756 18.211 1 22 ? P2B NAP 301 A 1 HETATM 46 O O1X NAP . . . B 2 -42.051 14.568 18.784 1 20.1 ? O1X NAP 301 A 1 HETATM 47 O O2X NAP . . . B 2 -40.123 13.733 17.582 1 20.68 ? O2X NAP 301 A 1 HETATM 48 O O3X NAP . . . B 2 -39.962 15.422 19.161 1 21.77 ? O3X NAP 301 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #