data_1U28 # _model_server_result.job_id a2r5o-ngtYjPurBjq-z7nA _model_server_result.datetime_utc '2024-11-18 00:32:52' _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 1u28 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":400}' # _entry.id 1U28 # _exptl.entry_id 1U28 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 5 _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 1U28 _cell.length_a 71.663 _cell.length_b 73.96 _cell.length_c 204.171 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1U28 _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 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,I,J,K _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 5 _struct_asym.id H _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 325 n n PA O2A NAP sing 326 n n PA O5B NAP sing 327 n n PA O3 NAP sing 328 n n O2A HOA2 NAP sing 329 n n O5B C5B NAP sing 330 n n C5B C4B NAP sing 331 n n C5B H51A NAP sing 332 n n C5B H52A NAP sing 333 n n C4B O4B NAP sing 334 n n C4B C3B NAP sing 335 n n C4B H4B NAP sing 336 n n O4B C1B NAP sing 337 n n C3B O3B NAP sing 338 n n C3B C2B NAP sing 339 n n C3B H3B NAP sing 340 n n O3B HO3A NAP sing 341 n n C2B O2B NAP sing 342 n n C2B C1B NAP sing 343 n n C2B H2B NAP sing 344 n n O2B P2B NAP sing 345 n n C1B N9A NAP sing 346 n n C1B H1B NAP sing 347 n n N9A C8A NAP sing 348 n y N9A C4A NAP sing 349 n y C8A N7A NAP doub 350 n y C8A H8A NAP sing 351 n n N7A C5A NAP sing 352 n y C5A C6A NAP sing 353 n y C5A C4A NAP doub 354 n y C6A N6A NAP sing 355 n n C6A N1A NAP doub 356 n y N6A H61A NAP sing 357 n n N6A H62A NAP sing 358 n n N1A C2A NAP sing 359 n y C2A N3A NAP doub 360 n y C2A H2A NAP sing 361 n n N3A C4A NAP sing 362 n y O3 PN NAP sing 363 n n PN O1N NAP doub 364 n n PN O2N NAP sing 365 n n PN O5D NAP sing 366 n n O5D C5D NAP sing 367 n n C5D C4D NAP sing 368 n n C5D H51N NAP sing 369 n n C5D H52N NAP sing 370 n n C4D O4D NAP sing 371 n n C4D C3D NAP sing 372 n n C4D H4D NAP sing 373 n n O4D C1D NAP sing 374 n n C3D O3D NAP sing 375 n n C3D C2D NAP sing 376 n n C3D H3D NAP sing 377 n n O3D HO3N NAP sing 378 n n C2D O2D NAP sing 379 n n C2D C1D NAP sing 380 n n C2D H2D NAP sing 381 n n O2D HO2N NAP sing 382 n n C1D N1N NAP sing 383 n n C1D H1D NAP sing 384 n n N1N C2N NAP sing 385 n y N1N C6N NAP doub 386 n y C2N C3N NAP doub 387 n y C2N H2N NAP sing 388 n n C3N C7N NAP sing 389 n n C3N C4N NAP sing 390 n y C7N O7N NAP doub 391 n n C7N N7N NAP sing 392 n n N7N H71N NAP sing 393 n n N7N H72N NAP sing 394 n n C4N C5N NAP doub 395 n y C4N H4N NAP sing 396 n n C5N C6N NAP sing 397 n y C5N H5N NAP sing 398 n n C6N H6N NAP sing 399 n n P2B O1X NAP doub 400 n n P2B O2X NAP sing 401 n n P2B O3X NAP sing 402 n n O2X HOP2 NAP sing 403 n n O3X HOP3 NAP sing 404 n n # _atom_sites.entry_id 1U28 _atom_sites.fract_transf_matrix[1][1] 0.013954 _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] 0.013521 _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] 0.004898 _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 D 3 NAD A 1 500 500 NAD NAD . E 3 NAD B 1 600 600 NAD NAD . F 4 GOL B 1 700 700 GOL GOL . G 4 GOL B 1 800 800 GOL GOL . H 5 NAP C 1 400 400 NAP NAP . I 6 HOH A 1 501 8 HOH HOH . I 6 HOH A 2 502 15 HOH HOH . I 6 HOH A 3 503 17 HOH HOH . I 6 HOH A 4 504 19 HOH HOH . I 6 HOH A 5 505 21 HOH HOH . I 6 HOH A 6 506 26 HOH HOH . I 6 HOH A 7 507 29 HOH HOH . I 6 HOH A 8 508 31 HOH HOH . I 6 HOH A 9 509 33 HOH HOH . I 6 HOH A 10 510 34 HOH HOH . I 6 HOH A 11 511 36 HOH HOH . I 6 HOH A 12 512 38 HOH HOH . I 6 HOH A 13 513 39 HOH HOH . I 6 HOH A 14 514 40 HOH HOH . I 6 HOH A 15 515 42 HOH HOH . I 6 HOH A 16 516 44 HOH HOH . I 6 HOH A 17 517 45 HOH HOH . I 6 HOH A 18 518 47 HOH HOH . I 6 HOH A 19 519 48 HOH HOH . I 6 HOH A 20 520 50 HOH HOH . I 6 HOH A 21 521 52 HOH HOH . I 6 HOH A 22 522 56 HOH HOH . I 6 HOH A 23 523 58 HOH HOH . I 6 HOH A 24 524 60 HOH HOH . I 6 HOH A 25 525 61 HOH HOH . I 6 HOH A 26 526 63 HOH HOH . I 6 HOH A 27 527 64 HOH HOH . I 6 HOH A 28 528 65 HOH HOH . I 6 HOH A 29 529 67 HOH HOH . I 6 HOH A 30 530 69 HOH HOH . I 6 HOH A 31 531 71 HOH HOH . I 6 HOH A 32 532 76 HOH HOH . I 6 HOH A 33 533 82 HOH HOH . I 6 HOH A 34 534 83 HOH HOH . I 6 HOH A 35 535 95 HOH HOH . I 6 HOH A 36 536 98 HOH HOH . I 6 HOH A 37 537 99 HOH HOH . I 6 HOH A 38 538 104 HOH HOH . I 6 HOH A 39 539 106 HOH HOH . J 6 HOH B 1 801 1 HOH HOH . J 6 HOH B 2 802 2 HOH HOH . J 6 HOH B 3 803 3 HOH HOH . J 6 HOH B 4 804 4 HOH HOH . J 6 HOH B 5 805 5 HOH HOH . J 6 HOH B 6 806 6 HOH HOH . J 6 HOH B 7 807 7 HOH HOH . J 6 HOH B 8 808 9 HOH HOH . J 6 HOH B 9 809 10 HOH HOH . J 6 HOH B 10 810 11 HOH HOH . J 6 HOH B 11 811 12 HOH HOH . J 6 HOH B 12 812 13 HOH HOH . J 6 HOH B 13 813 14 HOH HOH . J 6 HOH B 14 814 16 HOH HOH . J 6 HOH B 15 815 18 HOH HOH . J 6 HOH B 16 816 20 HOH HOH . J 6 HOH B 17 817 22 HOH HOH . J 6 HOH B 18 818 23 HOH HOH . J 6 HOH B 19 819 24 HOH HOH . J 6 HOH B 20 820 25 HOH HOH . J 6 HOH B 21 821 27 HOH HOH . J 6 HOH B 22 822 28 HOH HOH . J 6 HOH B 23 823 30 HOH HOH . J 6 HOH B 24 824 32 HOH HOH . J 6 HOH B 25 825 35 HOH HOH . J 6 HOH B 26 826 37 HOH HOH . J 6 HOH B 27 827 43 HOH HOH . J 6 HOH B 28 828 46 HOH HOH . J 6 HOH B 29 829 49 HOH HOH . J 6 HOH B 30 830 51 HOH HOH . J 6 HOH B 31 831 53 HOH HOH . J 6 HOH B 32 832 54 HOH HOH . J 6 HOH B 33 833 55 HOH HOH . J 6 HOH B 34 834 57 HOH HOH . J 6 HOH B 35 835 59 HOH HOH . J 6 HOH B 36 836 62 HOH HOH . J 6 HOH B 37 837 70 HOH HOH . J 6 HOH B 38 838 72 HOH HOH . J 6 HOH B 39 839 73 HOH HOH . J 6 HOH B 40 840 74 HOH HOH . J 6 HOH B 41 841 75 HOH HOH . J 6 HOH B 42 842 77 HOH HOH . J 6 HOH B 43 843 78 HOH HOH . J 6 HOH B 44 844 80 HOH HOH . J 6 HOH B 45 845 81 HOH HOH . J 6 HOH B 46 846 84 HOH HOH . J 6 HOH B 47 847 85 HOH HOH . J 6 HOH B 48 848 86 HOH HOH . J 6 HOH B 49 849 87 HOH HOH . J 6 HOH B 50 850 88 HOH HOH . J 6 HOH B 51 851 89 HOH HOH . J 6 HOH B 52 852 90 HOH HOH . J 6 HOH B 53 853 91 HOH HOH . J 6 HOH B 54 854 93 HOH HOH . J 6 HOH B 55 855 94 HOH HOH . J 6 HOH B 56 856 96 HOH HOH . J 6 HOH B 57 857 97 HOH HOH . J 6 HOH B 58 858 100 HOH HOH . J 6 HOH B 59 859 101 HOH HOH . J 6 HOH B 60 860 102 HOH HOH . J 6 HOH B 61 861 103 HOH HOH . J 6 HOH B 62 862 105 HOH HOH . J 6 HOH B 63 863 107 HOH HOH . J 6 HOH B 64 864 109 HOH HOH . K 6 HOH C 1 401 41 HOH HOH . K 6 HOH C 2 402 66 HOH HOH . K 6 HOH C 3 403 68 HOH HOH . K 6 HOH C 4 404 79 HOH HOH . K 6 HOH C 5 405 92 HOH HOH . K 6 HOH C 6 406 108 HOH HOH . K 6 HOH C 7 407 110 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 . . . H 5 -25.277 -35.753 7.503 1 53.15 ? PA NAP 400 C 1 HETATM 2 O O1A NAP . . . H 5 -26.707 -36.086 7.472 1 55.23 ? O1A NAP 400 C 1 HETATM 3 O O2A NAP . . . H 5 -24.523 -36.831 8.185 1 51.6 ? O2A NAP 400 C 1 HETATM 4 O O5B NAP . . . H 5 -24.755 -35.575 5.995 1 55.81 ? O5B NAP 400 C 1 HETATM 5 C C5B NAP . . . H 5 -23.615 -34.825 5.668 1 56.81 ? C5B NAP 400 C 1 HETATM 6 C C4B NAP . . . H 5 -23.527 -34.789 4.153 1 60.34 ? C4B NAP 400 C 1 HETATM 7 O O4B NAP . . . H 5 -22.582 -33.832 3.69 1 59.88 ? O4B NAP 400 C 1 HETATM 8 C C3B NAP . . . H 5 -23.132 -36.155 3.603 1 63.8 ? C3B NAP 400 C 1 HETATM 9 O O3B NAP . . . H 5 -24.248 -36.803 3.028 1 66.37 ? O3B NAP 400 C 1 HETATM 10 C C2B NAP . . . H 5 -22.063 -35.858 2.576 1 65.36 ? C2B NAP 400 C 1 HETATM 11 O O2B NAP . . . H 5 -22.413 -36.26 1.27 1 70.3 ? O2B NAP 400 C 1 HETATM 12 C C1B NAP . . . H 5 -21.921 -34.343 2.546 1 61.41 ? C1B NAP 400 C 1 HETATM 13 N N9A NAP . . . H 5 -20.497 -33.973 2.437 1 60.19 ? N9A NAP 400 C 1 HETATM 14 C C8A NAP . . . H 5 -19.405 -34.508 3.09 1 59.94 ? C8A NAP 400 C 1 HETATM 15 N N7A NAP . . . H 5 -18.299 -33.854 2.655 1 60.15 ? N7A NAP 400 C 1 HETATM 16 C C5A NAP . . . H 5 -18.672 -32.934 1.735 1 60.09 ? C5A NAP 400 C 1 HETATM 17 C C6A NAP . . . H 5 -17.96 -32.005 0.985 1 61.7 ? C6A NAP 400 C 1 HETATM 18 N N6A NAP . . . H 5 -16.684 -31.757 1.28 1 61.05 ? N6A NAP 400 C 1 HETATM 19 N N1A NAP . . . H 5 -18.647 -31.173 0.113 1 61.79 ? N1A NAP 400 C 1 HETATM 20 C C2A NAP . . . H 5 -20.021 -31.257 -0.021 1 61.5 ? C2A NAP 400 C 1 HETATM 21 N N3A NAP . . . H 5 -20.716 -32.188 0.729 1 60.88 ? N3A NAP 400 C 1 HETATM 22 C C4A NAP . . . H 5 -20.05 -33.004 1.588 1 60.05 ? C4A NAP 400 C 1 HETATM 23 O O3 NAP . . . H 5 -25.125 -34.275 8.16 1 49.75 ? O3 NAP 400 C 1 HETATM 24 P PN NAP . . . H 5 -26.342 -33.316 8.656 1 46.88 ? PN NAP 400 C 1 HETATM 25 O O1N NAP . . . H 5 -27.369 -33.148 7.608 1 48.54 ? O1N NAP 400 C 1 HETATM 26 O O2N NAP . . . H 5 -25.747 -32.078 9.196 1 44.13 ? O2N NAP 400 C 1 HETATM 27 O O5D NAP . . . H 5 -26.962 -34.213 9.847 1 45.4 ? O5D NAP 400 C 1 HETATM 28 C C5D NAP . . . H 5 -26.147 -34.491 10.963 1 45.59 ? C5D NAP 400 C 1 HETATM 29 C C4D NAP . . . H 5 -26.246 -35.93 11.448 1 46.42 ? C4D NAP 400 C 1 HETATM 30 O O4D NAP . . . H 5 -25.246 -36.133 12.432 1 45.78 ? O4D NAP 400 C 1 HETATM 31 C C3D NAP . . . H 5 -27.569 -36.272 12.118 1 46.68 ? C3D NAP 400 C 1 HETATM 32 O O3D NAP . . . H 5 -27.917 -37.615 11.845 1 50.61 ? O3D NAP 400 C 1 HETATM 33 C C2D NAP . . . H 5 -27.276 -36.136 13.592 1 44.7 ? C2D NAP 400 C 1 HETATM 34 O O2D NAP . . . H 5 -28.108 -36.916 14.415 1 44.46 ? O2D NAP 400 C 1 HETATM 35 C C1D NAP . . . H 5 -25.835 -36.617 13.631 1 45.37 ? C1D NAP 400 C 1 HETATM 36 N N1N NAP . . . H 5 -25.103 -36.168 14.833 1 43.54 ? N1N NAP 400 C 1 HETATM 37 C C2N NAP . . . H 5 -25.178 -34.859 15.222 1 40.77 ? C2N NAP 400 C 1 HETATM 38 C C3N NAP . . . H 5 -24.489 -34.441 16.357 1 40.45 ? C3N NAP 400 C 1 HETATM 39 C C7N NAP . . . H 5 -24.558 -33.012 16.791 1 37.18 ? C7N NAP 400 C 1 HETATM 40 O O7N NAP . . . H 5 -24.391 -32.729 18.152 1 37.68 ? O7N NAP 400 C 1 HETATM 41 N N7N NAP . . . H 5 -24.76 -32.056 15.894 1 36.08 ? N7N NAP 400 C 1 HETATM 42 C C4N NAP . . . H 5 -23.712 -35.348 17.079 1 41.71 ? C4N NAP 400 C 1 HETATM 43 C C5N NAP . . . H 5 -23.64 -36.676 16.66 1 43.59 ? C5N NAP 400 C 1 HETATM 44 C C6N NAP . . . H 5 -24.343 -37.074 15.531 1 44.64 ? C6N NAP 400 C 1 HETATM 45 P P2B NAP . . . H 5 -21.242 -36.647 0.229 1 73.2 ? P2B NAP 400 C 1 HETATM 46 O O1X NAP . . . H 5 -21.874 -36.751 -1.136 1 76.68 ? O1X NAP 400 C 1 HETATM 47 O O2X NAP . . . H 5 -20.19 -35.588 0.13 1 72.22 ? O2X NAP 400 C 1 HETATM 48 O O3X NAP . . . H 5 -20.637 -37.932 0.753 1 73.01 ? O3X NAP 400 C 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 39 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 48 #