data_1EMD # _model_server_result.job_id 1XDObRhy4Og09FbY10ApGA _model_server_result.datetime_utc '2025-04-21 14:18:41' _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 1emd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":314}' # _entry.id 1EMD # _exptl.entry_id 1EMD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 130.1 _cell.angle_gamma 90 _cell.entry_id 1EMD _cell.length_a 116.8 _cell.length_b 43.05 _cell.length_c 83.74 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1EMD _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,PQS _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,D _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' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H27 N7 O14 P2' _chem_comp.formula_weight 663.425 _chem_comp.id NAD _chem_comp.mon_nstd_flag . _chem_comp.name NICOTINAMIDE-ADENINE-DINUCLEOTIDE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 NAD doub 257 n n PA O2A NAD sing 258 n n PA O5B NAD sing 259 n n PA O3 NAD sing 260 n n O2A HOA2 NAD sing 261 n n O5B C5B NAD sing 262 n n C5B C4B NAD sing 263 n n C5B H51A NAD sing 264 n n C5B H52A NAD sing 265 n n C4B O4B NAD sing 266 n n C4B C3B NAD sing 267 n n C4B H4B NAD sing 268 n n O4B C1B NAD sing 269 n n C3B O3B NAD sing 270 n n C3B C2B NAD sing 271 n n C3B H3B NAD sing 272 n n O3B HO3A NAD sing 273 n n C2B O2B NAD sing 274 n n C2B C1B NAD sing 275 n n C2B H2B NAD sing 276 n n O2B HO2A NAD sing 277 n n C1B N9A NAD sing 278 n n C1B H1B NAD sing 279 n n N9A C8A NAD sing 280 n y N9A C4A NAD sing 281 n y C8A N7A NAD doub 282 n y C8A H8A NAD sing 283 n n N7A C5A NAD sing 284 n y C5A C6A NAD sing 285 n y C5A C4A NAD doub 286 n y C6A N6A NAD sing 287 n n C6A N1A NAD doub 288 n y N6A H61A NAD sing 289 n n N6A H62A NAD sing 290 n n N1A C2A NAD sing 291 n y C2A N3A NAD doub 292 n y C2A H2A NAD sing 293 n n N3A C4A NAD sing 294 n y O3 PN NAD sing 295 n n PN O1N NAD doub 296 n n PN O2N NAD sing 297 n n PN O5D NAD sing 298 n n O5D C5D NAD sing 299 n n C5D C4D NAD sing 300 n n C5D H51N NAD sing 301 n n C5D H52N NAD sing 302 n n C4D O4D NAD sing 303 n n C4D C3D NAD sing 304 n n C4D H4D NAD sing 305 n n O4D C1D NAD sing 306 n n C3D O3D NAD sing 307 n n C3D C2D NAD sing 308 n n C3D H3D NAD sing 309 n n O3D HO3N NAD sing 310 n n C2D O2D NAD sing 311 n n C2D C1D NAD sing 312 n n C2D H2D NAD sing 313 n n O2D HO2N NAD sing 314 n n C1D N1N NAD sing 315 n n C1D H1D NAD sing 316 n n N1N C2N NAD sing 317 n y N1N C6N NAD doub 318 n y C2N C3N NAD doub 319 n y C2N H2N NAD sing 320 n n C3N C7N NAD sing 321 n n C3N C4N NAD sing 322 n y C7N O7N NAD doub 323 n n C7N N7N NAD sing 324 n n N7N H71N NAD sing 325 n n N7N H72N NAD sing 326 n n C4N C5N NAD doub 327 n y C4N H4N NAD sing 328 n n C5N C6N NAD sing 329 n y C5N H5N NAD sing 330 n n C6N H6N NAD sing 331 n n # _atom_sites.entry_id 1EMD _atom_sites.fract_transf_matrix[1][1] 0.008562 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00721 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023229 _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] 0.015612 _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 CIT A 1 313 313 CIT CIT . C 3 NAD A 1 314 314 NAD NAD . D 4 HOH A 1 315 315 HOH HOH . D 4 HOH A 2 316 316 HOH HOH . D 4 HOH A 3 317 317 HOH HOH . D 4 HOH A 4 318 318 HOH HOH . D 4 HOH A 5 319 319 HOH HOH . D 4 HOH A 6 320 320 HOH HOH . D 4 HOH A 7 321 321 HOH HOH . D 4 HOH A 8 322 322 HOH HOH . D 4 HOH A 9 323 323 HOH HOH . D 4 HOH A 10 324 324 HOH HOH . D 4 HOH A 11 325 325 HOH HOH . D 4 HOH A 12 326 326 HOH HOH . D 4 HOH A 13 327 327 HOH HOH . D 4 HOH A 14 328 328 HOH HOH . D 4 HOH A 15 329 329 HOH HOH . D 4 HOH A 16 330 330 HOH HOH . D 4 HOH A 17 331 331 HOH HOH . D 4 HOH A 18 332 332 HOH HOH . D 4 HOH A 19 333 333 HOH HOH . D 4 HOH A 20 334 334 HOH HOH . D 4 HOH A 21 335 335 HOH HOH . D 4 HOH A 22 336 336 HOH HOH . D 4 HOH A 23 337 337 HOH HOH . D 4 HOH A 24 338 338 HOH HOH . D 4 HOH A 25 339 339 HOH HOH . D 4 HOH A 26 340 340 HOH HOH . D 4 HOH A 27 341 341 HOH HOH . D 4 HOH A 28 342 342 HOH HOH . D 4 HOH A 29 343 343 HOH HOH . D 4 HOH A 30 344 344 HOH HOH . D 4 HOH A 31 345 345 HOH HOH . D 4 HOH A 32 346 346 HOH HOH . D 4 HOH A 33 347 347 HOH HOH . D 4 HOH A 34 348 348 HOH HOH . D 4 HOH A 35 349 349 HOH HOH . D 4 HOH A 36 350 350 HOH HOH . D 4 HOH A 37 351 351 HOH HOH . D 4 HOH A 38 352 352 HOH HOH . D 4 HOH A 39 353 353 HOH HOH . D 4 HOH A 40 354 354 HOH HOH . D 4 HOH A 41 355 355 HOH HOH . D 4 HOH A 42 356 356 HOH HOH . D 4 HOH A 43 357 357 HOH HOH . D 4 HOH A 44 358 358 HOH HOH . D 4 HOH A 45 359 359 HOH HOH . D 4 HOH A 46 360 360 HOH HOH . D 4 HOH A 47 361 361 HOH HOH . D 4 HOH A 48 362 362 HOH HOH . D 4 HOH A 49 363 363 HOH HOH . D 4 HOH A 50 364 364 HOH HOH . D 4 HOH A 51 365 365 HOH HOH . D 4 HOH A 52 366 366 HOH HOH . D 4 HOH A 53 367 367 HOH HOH . D 4 HOH A 54 368 368 HOH HOH . D 4 HOH A 55 369 369 HOH HOH . D 4 HOH A 56 370 370 HOH HOH . D 4 HOH A 57 371 371 HOH HOH . D 4 HOH A 58 372 372 HOH HOH . D 4 HOH A 59 373 373 HOH HOH . D 4 HOH A 60 374 374 HOH HOH . D 4 HOH A 61 375 375 HOH HOH . D 4 HOH A 62 376 376 HOH HOH . D 4 HOH A 63 377 377 HOH HOH . D 4 HOH A 64 378 378 HOH HOH . D 4 HOH A 65 379 379 HOH HOH . D 4 HOH A 66 380 380 HOH HOH . D 4 HOH A 67 381 381 HOH HOH . D 4 HOH A 68 382 382 HOH HOH . D 4 HOH A 69 383 383 HOH HOH . D 4 HOH A 70 384 384 HOH HOH . D 4 HOH A 71 385 385 HOH HOH . D 4 HOH A 72 386 386 HOH HOH . D 4 HOH A 73 387 387 HOH HOH . D 4 HOH A 74 388 388 HOH HOH . D 4 HOH A 75 389 389 HOH HOH . D 4 HOH A 76 390 390 HOH HOH . D 4 HOH A 77 391 391 HOH HOH . D 4 HOH A 78 392 392 HOH HOH . D 4 HOH A 79 393 393 HOH HOH . D 4 HOH A 80 394 394 HOH HOH . D 4 HOH A 81 395 395 HOH HOH . D 4 HOH A 82 396 396 HOH HOH . D 4 HOH A 83 397 397 HOH HOH . D 4 HOH A 84 398 398 HOH HOH . D 4 HOH A 85 399 399 HOH HOH . D 4 HOH A 86 400 400 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 NAD . . . C 3 6.405 -11.13 4.954 0.69 26.19 ? PA NAD 314 A 1 HETATM 2 O O1A NAD . . . C 3 6.596 -12.584 5.18 0.69 27.85 ? O1A NAD 314 A 1 HETATM 3 O O2A NAD . . . C 3 5.164 -10.631 4.35 0.69 19.49 ? O2A NAD 314 A 1 HETATM 4 O O5B NAD . . . C 3 7.698 -10.375 4.274 0.69 28.25 ? O5B NAD 314 A 1 HETATM 5 C C5B NAD . . . C 3 9.1 -10.752 4.424 0.69 26.99 ? C5B NAD 314 A 1 HETATM 6 C C4B NAD . . . C 3 9.908 -10.815 3.112 0.69 30.23 ? C4B NAD 314 A 1 HETATM 7 O O4B NAD . . . C 3 11.245 -11.256 3.417 0.69 29.14 ? O4B NAD 314 A 1 HETATM 8 C C3B NAD . . . C 3 9.377 -11.852 2.102 0.69 30.36 ? C3B NAD 314 A 1 HETATM 9 O O3B NAD . . . C 3 8.918 -11.3 0.864 0.69 31.71 ? O3B NAD 314 A 1 HETATM 10 C C2B NAD . . . C 3 10.516 -12.828 1.856 0.69 30.56 ? C2B NAD 314 A 1 HETATM 11 O O2B NAD . . . C 3 10.532 -13.467 0.558 0.69 32.13 ? O2B NAD 314 A 1 HETATM 12 C C1B NAD . . . C 3 11.642 -11.888 2.199 0.69 29.49 ? C1B NAD 314 A 1 HETATM 13 N N9A NAD . . . C 3 12.946 -12.548 2.294 0.69 30.68 ? N9A NAD 314 A 1 HETATM 14 C C8A NAD . . . C 3 13.403 -13.455 3.186 0.69 30.38 ? C8A NAD 314 A 1 HETATM 15 N N7A NAD . . . C 3 14.746 -13.503 3.17 0.69 29.26 ? N7A NAD 314 A 1 HETATM 16 C C5A NAD . . . C 3 15.076 -12.598 2.249 0.69 30.31 ? C5A NAD 314 A 1 HETATM 17 C C6A NAD . . . C 3 16.347 -12.115 2.003 0.69 27.98 ? C6A NAD 314 A 1 HETATM 18 N N6A NAD . . . C 3 17.465 -12.733 2.307 0.69 26.75 ? N6A NAD 314 A 1 HETATM 19 N N1A NAD . . . C 3 16.406 -11.054 1.195 0.69 30.45 ? N1A NAD 314 A 1 HETATM 20 C C2A NAD . . . C 3 15.323 -10.531 0.634 0.69 29.9 ? C2A NAD 314 A 1 HETATM 21 N N3A NAD . . . C 3 14.102 -10.997 0.817 0.69 30.17 ? N3A NAD 314 A 1 HETATM 22 C C4A NAD . . . C 3 13.972 -12.018 1.668 0.69 30.56 ? C4A NAD 314 A 1 HETATM 23 O O3 NAD . . . C 3 6.47 -10.585 6.442 0.69 25.22 ? O3 NAD 314 A 1 HETATM 24 P PN NAD . . . C 3 6.574 -9.067 6.899 0.69 29.3 ? PN NAD 314 A 1 HETATM 25 O O1N NAD . . . C 3 5.404 -8.704 7.74 0.69 22.95 ? O1N NAD 314 A 1 HETATM 26 O O2N NAD . . . C 3 6.77 -8.191 5.717 0.69 18.36 ? O2N NAD 314 A 1 HETATM 27 O O5D NAD . . . C 3 7.869 -9.394 7.848 0.69 23.27 ? O5D NAD 314 A 1 HETATM 28 C C5D NAD . . . C 3 8.765 -8.341 8.225 0.69 27.18 ? C5D NAD 314 A 1 HETATM 29 C C4D NAD . . . C 3 9.965 -8.616 9.126 0.69 28.17 ? C4D NAD 314 A 1 HETATM 30 O O4D NAD . . . C 3 10.32 -7.29 9.589 0.69 33.05 ? O4D NAD 314 A 1 HETATM 31 C C3D NAD . . . C 3 9.643 -9.373 10.416 0.69 28.95 ? C3D NAD 314 A 1 HETATM 32 O O3D NAD . . . C 3 10.803 -9.831 11.132 0.69 19.79 ? O3D NAD 314 A 1 HETATM 33 C C2D NAD . . . C 3 8.983 -8.282 11.258 0.69 32.6 ? C2D NAD 314 A 1 HETATM 34 O O2D NAD . . . C 3 8.693 -8.76 12.602 0.69 31.87 ? O2D NAD 314 A 1 HETATM 35 C C1D NAD . . . C 3 10.08 -7.227 11.022 0.69 34.45 ? C1D NAD 314 A 1 HETATM 36 N N1N NAD . . . C 3 9.747 -5.837 11.353 0.69 40.34 ? N1N NAD 314 A 1 HETATM 37 C C2N NAD . . . C 3 10.008 -5.147 12.56 0.69 44.29 ? C2N NAD 314 A 1 HETATM 38 C C3N NAD . . . C 3 9.629 -3.816 12.717 0.69 44.76 ? C3N NAD 314 A 1 HETATM 39 C C7N NAD . . . C 3 9.879 -3.032 13.977 0.69 44.86 ? C7N NAD 314 A 1 HETATM 40 O O7N NAD . . . C 3 9.185 -2.066 14.289 0.69 48.45 ? O7N NAD 314 A 1 HETATM 41 N N7N NAD . . . C 3 10.925 -3.436 14.647 0.69 42.75 ? N7N NAD 314 A 1 HETATM 42 C C4N NAD . . . C 3 8.913 -3.178 11.754 0.69 45.41 ? C4N NAD 314 A 1 HETATM 43 C C5N NAD . . . C 3 8.584 -3.871 10.603 0.69 45.19 ? C5N NAD 314 A 1 HETATM 44 C C6N NAD . . . C 3 9.015 -5.178 10.398 0.69 42.63 ? C6N NAD 314 A 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 44 #