data_1DJL # _model_server_result.job_id kUk7ZvheIkJ63qLSgGbyoA _model_server_result.datetime_utc '2024-11-24 18:44:21' _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 1djl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":2136}' # _entry.id 1DJL # _exptl.entry_id 1DJL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 2 _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 1DJL _cell.length_a 58.104 _cell.length_b 58.104 _cell.length_c 250.773 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DJL _symmetry.cell_setting ? _symmetry.Int_Tables_number 91 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 G N 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 250 n n PA O2A NAP sing 251 n n PA O5B NAP sing 252 n n PA O3 NAP sing 253 n n O2A HOA2 NAP sing 254 n n O5B C5B NAP sing 255 n n C5B C4B NAP sing 256 n n C5B H51A NAP sing 257 n n C5B H52A NAP sing 258 n n C4B O4B NAP sing 259 n n C4B C3B NAP sing 260 n n C4B H4B NAP sing 261 n n O4B C1B NAP sing 262 n n C3B O3B NAP sing 263 n n C3B C2B NAP sing 264 n n C3B H3B NAP sing 265 n n O3B HO3A NAP sing 266 n n C2B O2B NAP sing 267 n n C2B C1B NAP sing 268 n n C2B H2B NAP sing 269 n n O2B P2B NAP sing 270 n n C1B N9A NAP sing 271 n n C1B H1B NAP sing 272 n n N9A C8A NAP sing 273 n y N9A C4A NAP sing 274 n y C8A N7A NAP doub 275 n y C8A H8A NAP sing 276 n n N7A C5A NAP sing 277 n y C5A C6A NAP sing 278 n y C5A C4A NAP doub 279 n y C6A N6A NAP sing 280 n n C6A N1A NAP doub 281 n y N6A H61A NAP sing 282 n n N6A H62A NAP sing 283 n n N1A C2A NAP sing 284 n y C2A N3A NAP doub 285 n y C2A H2A NAP sing 286 n n N3A C4A NAP sing 287 n y O3 PN NAP sing 288 n n PN O1N NAP doub 289 n n PN O2N NAP sing 290 n n PN O5D NAP sing 291 n n O5D C5D NAP sing 292 n n C5D C4D NAP sing 293 n n C5D H51N NAP sing 294 n n C5D H52N NAP sing 295 n n C4D O4D NAP sing 296 n n C4D C3D NAP sing 297 n n C4D H4D NAP sing 298 n n O4D C1D NAP sing 299 n n C3D O3D NAP sing 300 n n C3D C2D NAP sing 301 n n C3D H3D NAP sing 302 n n O3D HO3N NAP sing 303 n n C2D O2D NAP sing 304 n n C2D C1D NAP sing 305 n n C2D H2D NAP sing 306 n n O2D HO2N NAP sing 307 n n C1D N1N NAP sing 308 n n C1D H1D NAP sing 309 n n N1N C2N NAP sing 310 n y N1N C6N NAP doub 311 n y C2N C3N NAP doub 312 n y C2N H2N NAP sing 313 n n C3N C7N NAP sing 314 n n C3N C4N NAP sing 315 n y C7N O7N NAP doub 316 n n C7N N7N NAP sing 317 n n N7N H71N NAP sing 318 n n N7N H72N NAP sing 319 n n C4N C5N NAP doub 320 n y C4N H4N NAP sing 321 n n C5N C6N NAP sing 322 n y C5N H5N NAP sing 323 n n C6N H6N NAP sing 324 n n P2B O1X NAP doub 325 n n P2B O2X NAP sing 326 n n P2B O3X NAP sing 327 n n O2X HOP2 NAP sing 328 n n O3X HOP3 NAP sing 329 n n # _atom_sites.entry_id 1DJL _atom_sites.fract_transf_matrix[1][1] 0.01721 _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] 0.01721 _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] 0.00399 _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 C 2 SO4 A 1 1138 1138 SO4 SO4 . D 3 NAP A 1 1136 1136 NAP NAP . E 4 GOL A 1 1137 1137 GOL GOL . F 2 SO4 B 1 2138 2138 SO4 SO4 . G 3 NAP B 1 2136 2136 NAP NAP . H 4 GOL B 1 2137 2137 GOL GOL . I 5 HOH A 1 6 6 HOH HOH . I 5 HOH A 2 8 8 HOH HOH . I 5 HOH A 3 9 9 HOH HOH . I 5 HOH A 4 10 10 HOH HOH . I 5 HOH A 5 11 11 HOH HOH . I 5 HOH A 6 12 12 HOH HOH . I 5 HOH A 7 13 13 HOH HOH . I 5 HOH A 8 17 17 HOH HOH . I 5 HOH A 9 19 19 HOH HOH . I 5 HOH A 10 21 21 HOH HOH . I 5 HOH A 11 22 22 HOH HOH . I 5 HOH A 12 23 23 HOH HOH . I 5 HOH A 13 24 24 HOH HOH . I 5 HOH A 14 27 27 HOH HOH . I 5 HOH A 15 29 29 HOH HOH . I 5 HOH A 16 37 37 HOH HOH . I 5 HOH A 17 39 39 HOH HOH . I 5 HOH A 18 41 41 HOH HOH . I 5 HOH A 19 42 42 HOH HOH . I 5 HOH A 20 44 44 HOH HOH . I 5 HOH A 21 45 45 HOH HOH . I 5 HOH A 22 48 48 HOH HOH . I 5 HOH A 23 49 49 HOH HOH . I 5 HOH A 24 54 54 HOH HOH . I 5 HOH A 25 55 55 HOH HOH . I 5 HOH A 26 58 58 HOH HOH . I 5 HOH A 27 59 59 HOH HOH . I 5 HOH A 28 61 61 HOH HOH . I 5 HOH A 29 62 62 HOH HOH . I 5 HOH A 30 63 63 HOH HOH . I 5 HOH A 31 64 64 HOH HOH . I 5 HOH A 32 65 65 HOH HOH . I 5 HOH A 33 68 68 HOH HOH . I 5 HOH A 34 70 70 HOH HOH . I 5 HOH A 35 72 72 HOH HOH . I 5 HOH A 36 73 73 HOH HOH . I 5 HOH A 37 74 74 HOH HOH . I 5 HOH A 38 75 75 HOH HOH . I 5 HOH A 39 77 77 HOH HOH . I 5 HOH A 40 79 79 HOH HOH . I 5 HOH A 41 80 80 HOH HOH . J 5 HOH B 1 1 1 HOH HOH . J 5 HOH B 2 2 2 HOH HOH . J 5 HOH B 3 3 3 HOH HOH . J 5 HOH B 4 4 4 HOH HOH . J 5 HOH B 5 5 5 HOH HOH . J 5 HOH B 6 7 7 HOH HOH . J 5 HOH B 7 14 14 HOH HOH . J 5 HOH B 8 15 15 HOH HOH . J 5 HOH B 9 16 16 HOH HOH . J 5 HOH B 10 18 18 HOH HOH . J 5 HOH B 11 20 20 HOH HOH . J 5 HOH B 12 25 25 HOH HOH . J 5 HOH B 13 26 26 HOH HOH . J 5 HOH B 14 28 28 HOH HOH . J 5 HOH B 15 30 30 HOH HOH . J 5 HOH B 16 31 31 HOH HOH . J 5 HOH B 17 32 32 HOH HOH . J 5 HOH B 18 33 33 HOH HOH . J 5 HOH B 19 34 34 HOH HOH . J 5 HOH B 20 35 35 HOH HOH . J 5 HOH B 21 36 36 HOH HOH . J 5 HOH B 22 38 38 HOH HOH . J 5 HOH B 23 40 40 HOH HOH . J 5 HOH B 24 43 43 HOH HOH . J 5 HOH B 25 46 46 HOH HOH . J 5 HOH B 26 47 47 HOH HOH . J 5 HOH B 27 50 50 HOH HOH . J 5 HOH B 28 51 51 HOH HOH . J 5 HOH B 29 52 52 HOH HOH . J 5 HOH B 30 53 53 HOH HOH . J 5 HOH B 31 56 56 HOH HOH . J 5 HOH B 32 57 57 HOH HOH . J 5 HOH B 33 60 60 HOH HOH . J 5 HOH B 34 66 66 HOH HOH . J 5 HOH B 35 67 67 HOH HOH . J 5 HOH B 36 69 69 HOH HOH . J 5 HOH B 37 71 71 HOH HOH . J 5 HOH B 38 76 76 HOH HOH . J 5 HOH B 39 78 78 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 . . . G 3 2.939 23.853 20.587 1 26.5 ? PA NAP 2136 B 1 HETATM 2 O O1A NAP . . . G 3 2.99 24.228 19.256 1 25.41 ? O1A NAP 2136 B 1 HETATM 3 O O2A NAP . . . G 3 3.217 24.449 21.849 1 26.9 ? O2A NAP 2136 B 1 HETATM 4 O O5B NAP . . . G 3 2.375 22.399 20.617 1 26.29 ? O5B NAP 2136 B 1 HETATM 5 C C5B NAP . . . G 3 1.761 21.914 21.774 1 26.14 ? C5B NAP 2136 B 1 HETATM 6 C C4B NAP . . . G 3 0.814 20.896 21.214 1 24.87 ? C4B NAP 2136 B 1 HETATM 7 O O4B NAP . . . G 3 0.631 19.718 21.974 1 24.6 ? O4B NAP 2136 B 1 HETATM 8 C C3B NAP . . . G 3 -0.518 21.67 21.227 1 24.71 ? C3B NAP 2136 B 1 HETATM 9 O O3B NAP . . . G 3 -1.097 22.232 20.048 1 24.49 ? O3B NAP 2136 B 1 HETATM 10 C C2B NAP . . . G 3 -1.501 20.766 21.966 1 24.78 ? C2B NAP 2136 B 1 HETATM 11 O O2B NAP . . . G 3 -2.651 20.47 21.186 1 25.07 ? O2B NAP 2136 B 1 HETATM 12 C C1B NAP . . . G 3 -0.723 19.479 22.273 1 24.86 ? C1B NAP 2136 B 1 HETATM 13 N N9A NAP . . . G 3 -0.862 18.895 23.621 1 24.88 ? N9A NAP 2136 B 1 HETATM 14 C C8A NAP . . . G 3 -0.827 19.481 24.866 1 25 ? C8A NAP 2136 B 1 HETATM 15 N N7A NAP . . . G 3 -1.015 18.53 25.797 1 26.14 ? N7A NAP 2136 B 1 HETATM 16 C C5A NAP . . . G 3 -1.162 17.398 25.138 1 25.43 ? C5A NAP 2136 B 1 HETATM 17 C C6A NAP . . . G 3 -1.39 16.098 25.586 1 25.53 ? C6A NAP 2136 B 1 HETATM 18 N N6A NAP . . . G 3 -1.504 15.826 26.877 1 26.5 ? N6A NAP 2136 B 1 HETATM 19 N N1A NAP . . . G 3 -1.507 15.057 24.667 1 25.59 ? N1A NAP 2136 B 1 HETATM 20 C C2A NAP . . . G 3 -1.414 15.258 23.328 1 25.77 ? C2A NAP 2136 B 1 HETATM 21 N N3A NAP . . . G 3 -1.198 16.53 22.905 1 25.87 ? N3A NAP 2136 B 1 HETATM 22 C C4A NAP . . . G 3 -1.068 17.598 23.773 1 25.36 ? C4A NAP 2136 B 1 HETATM 23 O O3 NAP . . . G 3 4.473 23.467 20.577 1 26.08 ? O3 NAP 2136 B 1 HETATM 24 P PN NAP . . . G 3 5.832 22.775 19.844 1 26.05 ? PN NAP 2136 B 1 HETATM 25 O O1N NAP . . . G 3 5.538 22.196 18.559 1 25.94 ? O1N NAP 2136 B 1 HETATM 26 O O2N NAP . . . G 3 6.429 21.855 20.817 1 25.61 ? O2N NAP 2136 B 1 HETATM 27 O O5D NAP . . . G 3 6.5 24.204 19.766 1 25.66 ? O5D NAP 2136 B 1 HETATM 28 C C5D NAP . . . G 3 6.866 24.882 20.961 1 26.73 ? C5D NAP 2136 B 1 HETATM 29 C C4D NAP . . . G 3 6.382 26.305 20.921 1 27.29 ? C4D NAP 2136 B 1 HETATM 30 O O4D NAP . . . G 3 6.743 26.962 22.156 1 26.71 ? O4D NAP 2136 B 1 HETATM 31 C C3D NAP . . . G 3 7.006 27.178 19.806 1 27.51 ? C3D NAP 2136 B 1 HETATM 32 O O3D NAP . . . G 3 6.018 28.121 19.261 1 26.52 ? O3D NAP 2136 B 1 HETATM 33 C C2D NAP . . . G 3 8.136 27.901 20.533 1 27.97 ? C2D NAP 2136 B 1 HETATM 34 O O2D NAP . . . G 3 8.593 29.042 19.856 1 27.88 ? O2D NAP 2136 B 1 HETATM 35 C C1D NAP . . . G 3 7.511 28.137 21.889 1 28.91 ? C1D NAP 2136 B 1 HETATM 36 N N1N NAP . . . G 3 8.555 28.385 22.883 1 30.83 ? N1N NAP 2136 B 1 HETATM 37 C C2N NAP . . . G 3 9.6 27.419 23.065 1 32.17 ? C2N NAP 2136 B 1 HETATM 38 C C3N NAP . . . G 3 10.617 27.674 24.001 1 33.54 ? C3N NAP 2136 B 1 HETATM 39 C C7N NAP . . . G 3 11.746 26.663 24.203 1 34.03 ? C7N NAP 2136 B 1 HETATM 40 O O7N NAP . . . G 3 12.619 26.923 25.017 1 36.52 ? O7N NAP 2136 B 1 HETATM 41 N N7N NAP . . . G 3 11.715 25.547 23.484 1 34.18 ? N7N NAP 2136 B 1 HETATM 42 C C4N NAP . . . G 3 10.549 28.916 24.745 1 34.13 ? C4N NAP 2136 B 1 HETATM 43 C C5N NAP . . . G 3 9.489 29.906 24.58 1 33.78 ? C5N NAP 2136 B 1 HETATM 44 C C6N NAP . . . G 3 8.471 29.627 23.62 1 32.77 ? C6N NAP 2136 B 1 HETATM 45 P P2B NAP . . . G 3 -4.049 19.882 21.759 1 25.58 ? P2B NAP 2136 B 1 HETATM 46 O O1X NAP . . . G 3 -3.722 18.495 22.315 1 23.9 ? O1X NAP 2136 B 1 HETATM 47 O O2X NAP . . . G 3 -4.502 20.862 22.754 1 24.94 ? O2X NAP 2136 B 1 HETATM 48 O O3X NAP . . . G 3 -4.902 19.742 20.522 1 24.28 ? O3X NAP 2136 B 1 # _model_server_stats.io_time_ms 4 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 222 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #