data_9ONI # _model_server_result.job_id j_V1OlVolXe4xEKDZAlZbw _model_server_result.datetime_utc '2025-08-28 00:16:36' _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 9oni # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 9ONI # _exptl.entry_id 9ONI _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 9ONI _cell.length_a 133.586 _cell.length_b 133.586 _cell.length_c 76.198 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9ONI _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # _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 _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 294 n n PA O2A NAP sing 295 n n PA O5B NAP sing 296 n n PA O3 NAP sing 297 n n O2A HOA2 NAP sing 298 n n O5B C5B NAP sing 299 n n C5B C4B NAP sing 300 n n C5B H51A NAP sing 301 n n C5B H52A NAP sing 302 n n C4B O4B NAP sing 303 n n C4B C3B NAP sing 304 n n C4B H4B NAP sing 305 n n O4B C1B NAP sing 306 n n C3B O3B NAP sing 307 n n C3B C2B NAP sing 308 n n C3B H3B NAP sing 309 n n O3B HO3A NAP sing 310 n n C2B O2B NAP sing 311 n n C2B C1B NAP sing 312 n n C2B H2B NAP sing 313 n n O2B P2B NAP sing 314 n n C1B N9A NAP sing 315 n n C1B H1B NAP sing 316 n n N9A C8A NAP sing 317 n y N9A C4A NAP sing 318 n y C8A N7A NAP doub 319 n y C8A H8A NAP sing 320 n n N7A C5A NAP sing 321 n y C5A C6A NAP sing 322 n y C5A C4A NAP doub 323 n y C6A N6A NAP sing 324 n n C6A N1A NAP doub 325 n y N6A H61A NAP sing 326 n n N6A H62A NAP sing 327 n n N1A C2A NAP sing 328 n y C2A N3A NAP doub 329 n y C2A H2A NAP sing 330 n n N3A C4A NAP sing 331 n y O3 PN NAP sing 332 n n PN O1N NAP doub 333 n n PN O2N NAP sing 334 n n PN O5D NAP sing 335 n n O5D C5D NAP sing 336 n n C5D C4D NAP sing 337 n n C5D H51N NAP sing 338 n n C5D H52N NAP sing 339 n n C4D O4D NAP sing 340 n n C4D C3D NAP sing 341 n n C4D H4D NAP sing 342 n n O4D C1D NAP sing 343 n n C3D O3D NAP sing 344 n n C3D C2D NAP sing 345 n n C3D H3D NAP sing 346 n n O3D HO3N NAP sing 347 n n C2D O2D NAP sing 348 n n C2D C1D NAP sing 349 n n C2D H2D NAP sing 350 n n O2D HO2N NAP sing 351 n n C1D N1N NAP sing 352 n n C1D H1D NAP sing 353 n n N1N C2N NAP sing 354 n y N1N C6N NAP doub 355 n y C2N C3N NAP doub 356 n y C2N H2N NAP sing 357 n n C3N C7N NAP sing 358 n n C3N C4N NAP sing 359 n y C7N O7N NAP doub 360 n n C7N N7N NAP sing 361 n n N7N H71N NAP sing 362 n n N7N H72N NAP sing 363 n n C4N C5N NAP doub 364 n y C4N H4N NAP sing 365 n n C5N C6N NAP sing 366 n y C5N H5N NAP sing 367 n n C6N H6N NAP sing 368 n n P2B O1X NAP doub 369 n n P2B O2X NAP sing 370 n n P2B O3X NAP sing 371 n n O2X HOP2 NAP sing 372 n n O3X HOP3 NAP sing 373 n n # _atom_sites.entry_id 9ONI _atom_sites.fract_transf_matrix[1][1] 0.007486 _atom_sites.fract_transf_matrix[1][2] 0.004322 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008644 _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] 0.013124 _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 1 601 601 NAP NDP . C 3 MTX A 1 602 604 MTX MTX . D 4 HOH A 1 701 20 HOH HOH . D 4 HOH A 2 702 22 HOH HOH . D 4 HOH A 3 703 23 HOH HOH . D 4 HOH A 4 704 35 HOH HOH . D 4 HOH A 5 705 19 HOH HOH . D 4 HOH A 6 706 8 HOH HOH . D 4 HOH A 7 707 33 HOH HOH . D 4 HOH A 8 708 21 HOH HOH . D 4 HOH A 9 709 32 HOH HOH . D 4 HOH A 10 710 53 HOH HOH . D 4 HOH A 11 711 18 HOH HOH . D 4 HOH A 12 712 31 HOH HOH . D 4 HOH A 13 713 24 HOH HOH . D 4 HOH A 14 714 27 HOH HOH . D 4 HOH A 15 715 17 HOH HOH . D 4 HOH A 16 716 3 HOH HOH . D 4 HOH A 17 717 16 HOH HOH . D 4 HOH A 18 718 39 HOH HOH . D 4 HOH A 19 719 2 HOH HOH . D 4 HOH A 20 720 26 HOH HOH . D 4 HOH A 21 721 36 HOH HOH . D 4 HOH A 22 722 49 HOH HOH . D 4 HOH A 23 723 13 HOH HOH . D 4 HOH A 24 724 6 HOH HOH . D 4 HOH A 25 725 55 HOH HOH . D 4 HOH A 26 726 30 HOH HOH . D 4 HOH A 27 727 34 HOH HOH . D 4 HOH A 28 728 11 HOH HOH . D 4 HOH A 29 729 25 HOH HOH . D 4 HOH A 30 730 5 HOH HOH . D 4 HOH A 31 731 46 HOH HOH . D 4 HOH A 32 732 44 HOH HOH . D 4 HOH A 33 733 15 HOH HOH . D 4 HOH A 34 734 50 HOH HOH . D 4 HOH A 35 735 38 HOH HOH . D 4 HOH A 36 736 4 HOH HOH . D 4 HOH A 37 737 45 HOH HOH . D 4 HOH A 38 738 9 HOH HOH . D 4 HOH A 39 739 40 HOH HOH . D 4 HOH A 40 740 52 HOH HOH . D 4 HOH A 41 741 47 HOH HOH . D 4 HOH A 42 742 42 HOH HOH . D 4 HOH A 43 743 43 HOH HOH . D 4 HOH A 44 744 14 HOH HOH . D 4 HOH A 45 745 10 HOH HOH . D 4 HOH A 46 746 51 HOH HOH . D 4 HOH A 47 747 48 HOH HOH . D 4 HOH A 48 748 56 HOH HOH . D 4 HOH A 49 749 29 HOH HOH . D 4 HOH A 50 750 7 HOH HOH . D 4 HOH A 51 751 12 HOH HOH . D 4 HOH A 52 752 54 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 -5.538 -62.348 8.247 1 30.54 ? PA NAP 601 A 1 HETATM 2 O O1A NAP . . . B 2 -5.709 -61.955 9.669 1 31.13 ? O1A NAP 601 A 1 HETATM 3 O O2A NAP . . . B 2 -6.314 -61.714 7.139 1 34.24 ? O2A NAP 601 A 1 HETATM 4 O O5B NAP . . . B 2 -3.954 -62.194 7.912 1 59.05 ? O5B NAP 601 A 1 HETATM 5 C C5B NAP . . . B 2 -3.313 -62.892 8.941 1 18.26 ? C5B NAP 601 A 1 HETATM 6 C C4B NAP . . . B 2 -1.887 -62.455 8.89 1 22.4 ? C4B NAP 601 A 1 HETATM 7 O O4B NAP . . . B 2 -1.831 -61.063 9.099 1 47.01 ? O4B NAP 601 A 1 HETATM 8 C C3B NAP . . . B 2 -1.049 -63.101 9.996 1 39.54 ? C3B NAP 601 A 1 HETATM 9 O O3B NAP . . . B 2 -0.695 -64.406 9.65 1 36.23 ? O3B NAP 601 A 1 HETATM 10 C C2B NAP . . . B 2 0.167 -62.19 9.857 1 31.3 ? C2B NAP 601 A 1 HETATM 11 O O2B NAP . . . B 2 0.761 -62.29 8.673 1 32.71 ? O2B NAP 601 A 1 HETATM 12 C C1B NAP . . . B 2 -0.592 -60.812 9.783 1 40.28 ? C1B NAP 601 A 1 HETATM 13 N N9A NAP . . . B 2 -0.9 -60.171 11.066 1 25.48 ? N9A NAP 601 A 1 HETATM 14 C C8A NAP . . . B 2 -2.133 -60.089 11.72 1 22.03 ? C8A NAP 601 A 1 HETATM 15 N N7A NAP . . . B 2 -2.076 -59.401 12.875 1 45.37 ? N7A NAP 601 A 1 HETATM 16 C C5A NAP . . . B 2 -0.732 -59.009 12.962 1 24.56 ? C5A NAP 601 A 1 HETATM 17 C C6A NAP . . . B 2 -0.028 -58.271 13.928 1 52.22 ? C6A NAP 601 A 1 HETATM 18 N N6A NAP . . . B 2 -0.673 -57.782 15.051 1 40.24 ? N6A NAP 601 A 1 HETATM 19 N N1A NAP . . . B 2 1.306 -58.012 13.792 1 50.22 ? N1A NAP 601 A 1 HETATM 20 C C2A NAP . . . B 2 1.874 -58.53 12.655 1 27.41 ? C2A NAP 601 A 1 HETATM 21 N N3A NAP . . . B 2 1.346 -59.248 11.659 1 20.59 ? N3A NAP 601 A 1 HETATM 22 C C4A NAP . . . B 2 0.009 -59.478 11.839 1 24.82 ? C4A NAP 601 A 1 HETATM 23 O O3 NAP . . . B 2 -5.872 -63.991 8.246 1 40.17 ? O3 NAP 601 A 1 HETATM 24 P PN NAP . . . B 2 -7.318 -64.354 8.858 1 27.61 ? PN NAP 601 A 1 HETATM 25 O O1N NAP . . . B 2 -7.595 -65.766 8.528 1 41.2 ? O1N NAP 601 A 1 HETATM 26 O O2N NAP . . . B 2 -7.628 -63.787 10.226 1 42.33 ? O2N NAP 601 A 1 HETATM 27 O O5D NAP . . . B 2 -8.582 -63.606 7.9 1 40.72 ? O5D NAP 601 A 1 HETATM 28 C C5D NAP . . . B 2 -8.45 -64.128 6.648 1 43.24 ? C5D NAP 601 A 1 HETATM 29 C C4D NAP . . . B 2 -9.719 -64.876 6.262 1 29.8 ? C4D NAP 601 A 1 HETATM 30 O O4D NAP . . . B 2 -10.912 -64.1 6.54 1 55.26 ? O4D NAP 601 A 1 HETATM 31 C C3D NAP . . . B 2 -9.693 -65.038 4.741 1 60.91 ? C3D NAP 601 A 1 HETATM 32 O O3D NAP . . . B 2 -10.539 -66.094 4.437 1 45.72 ? O3D NAP 601 A 1 HETATM 33 C C2D NAP . . . B 2 -10.297 -63.711 4.31 1 44.22 ? C2D NAP 601 A 1 HETATM 34 O O2D NAP . . . B 2 -10.792 -63.752 3.006 1 35.69 ? O2D NAP 601 A 1 HETATM 35 C C1D NAP . . . B 2 -11.492 -63.673 5.308 1 23.23 ? C1D NAP 601 A 1 HETATM 36 N N1N NAP . . . B 2 -12.022 -62.304 5.499 1 33.92 ? N1N NAP 601 A 1 HETATM 37 C C2N NAP . . . B 2 -13.385 -62.075 5.487 1 33.26 ? C2N NAP 601 A 1 HETATM 38 C C3N NAP . . . B 2 -13.904 -60.901 5.949 1 25.77 ? C3N NAP 601 A 1 HETATM 39 C C7N NAP . . . B 2 -15.359 -60.763 5.93 1 39.2 ? C7N NAP 601 A 1 HETATM 40 O O7N NAP . . . B 2 -15.97 -59.697 6.083 1 31.73 ? O7N NAP 601 A 1 HETATM 41 N N7N NAP . . . B 2 -16.092 -61.918 5.762 1 26.23 ? N7N NAP 601 A 1 HETATM 42 C C4N NAP . . . B 2 -13.049 -59.818 6.467 1 31.62 ? C4N NAP 601 A 1 HETATM 43 C C5N NAP . . . B 2 -11.613 -60.084 6.223 1 41.75 ? C5N NAP 601 A 1 HETATM 44 C C6N NAP . . . B 2 -11.165 -61.255 5.761 1 32.16 ? C6N NAP 601 A 1 HETATM 45 P P2B NAP . . . B 2 2.272 -63.262 8.61 1 40.07 ? P2B NAP 601 A 1 HETATM 46 O O1X NAP . . . B 2 1.608 -64.604 8.651 1 30.18 ? O1X NAP 601 A 1 HETATM 47 O O2X NAP . . . B 2 2.903 -62.825 7.284 1 43.62 ? O2X NAP 601 A 1 HETATM 48 O O3X NAP . . . B 2 2.901 -62.756 9.876 1 43.86 ? O3X NAP 601 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 231 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #