data_3QBD # _model_server_result.job_id 5lfOKBcdw8JoW8CeqDR_ow _model_server_result.datetime_utc '2024-12-21 13:54:45' _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 3qbd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":400}' # _entry.id 3QBD # _exptl.entry_id 3QBD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 3QBD _cell.length_a 142.829 _cell.length_b 142.829 _cell.length_c 37.175 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QBD _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43' # _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,D,E,F _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 ? 2 C N N ? 2 D N 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 237 n n PA O2A NAD sing 238 n n PA O5B NAD sing 239 n n PA O3 NAD sing 240 n n O2A HOA2 NAD sing 241 n n O5B C5B NAD sing 242 n n C5B C4B NAD sing 243 n n C5B H51A NAD sing 244 n n C5B H52A NAD sing 245 n n C4B O4B NAD sing 246 n n C4B C3B NAD sing 247 n n C4B H4B NAD sing 248 n n O4B C1B NAD sing 249 n n C3B O3B NAD sing 250 n n C3B C2B NAD sing 251 n n C3B H3B NAD sing 252 n n O3B HO3A NAD sing 253 n n C2B O2B NAD sing 254 n n C2B C1B NAD sing 255 n n C2B H2B NAD sing 256 n n O2B HO2A NAD sing 257 n n C1B N9A NAD sing 258 n n C1B H1B NAD sing 259 n n N9A C8A NAD sing 260 n y N9A C4A NAD sing 261 n y C8A N7A NAD doub 262 n y C8A H8A NAD sing 263 n n N7A C5A NAD sing 264 n y C5A C6A NAD sing 265 n y C5A C4A NAD doub 266 n y C6A N6A NAD sing 267 n n C6A N1A NAD doub 268 n y N6A H61A NAD sing 269 n n N6A H62A NAD sing 270 n n N1A C2A NAD sing 271 n y C2A N3A NAD doub 272 n y C2A H2A NAD sing 273 n n N3A C4A NAD sing 274 n y O3 PN NAD sing 275 n n PN O1N NAD doub 276 n n PN O2N NAD sing 277 n n PN O5D NAD sing 278 n n O5D C5D NAD sing 279 n n C5D C4D NAD sing 280 n n C5D H51N NAD sing 281 n n C5D H52N NAD sing 282 n n C4D O4D NAD sing 283 n n C4D C3D NAD sing 284 n n C4D H4D NAD sing 285 n n O4D C1D NAD sing 286 n n C3D O3D NAD sing 287 n n C3D C2D NAD sing 288 n n C3D H3D NAD sing 289 n n O3D HO3N NAD sing 290 n n C2D O2D NAD sing 291 n n C2D C1D NAD sing 292 n n C2D H2D NAD sing 293 n n O2D HO2N NAD sing 294 n n C1D N1N NAD sing 295 n n C1D H1D NAD sing 296 n n N1N C2N NAD sing 297 n y N1N C6N NAD doub 298 n y C2N C3N NAD doub 299 n y C2N H2N NAD sing 300 n n C3N C7N NAD sing 301 n n C3N C4N NAD sing 302 n y C7N O7N NAD doub 303 n n C7N N7N NAD sing 304 n n N7N H71N NAD sing 305 n n N7N H72N NAD sing 306 n n C4N C5N NAD doub 307 n y C4N H4N NAD sing 308 n n C5N C6N NAD sing 309 n y C5N H5N NAD sing 310 n n C6N H6N NAD sing 311 n n # _atom_sites.entry_id 3QBD _atom_sites.fract_transf_matrix[1][1] 0.007001 _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] 0.007001 _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] 0.0269 _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 NAD A 1 400 400 NAD NAD . D 2 NAD B 1 400 400 NAD NAD . E 3 HOH A 1 363 2 HOH HOH . E 3 HOH A 2 364 3 HOH HOH . E 3 HOH A 3 365 6 HOH HOH . E 3 HOH A 4 366 8 HOH HOH . E 3 HOH A 5 367 9 HOH HOH . E 3 HOH A 6 368 11 HOH HOH . E 3 HOH A 7 369 16 HOH HOH . E 3 HOH A 8 370 17 HOH HOH . E 3 HOH A 9 371 18 HOH HOH . E 3 HOH A 10 372 19 HOH HOH . E 3 HOH A 11 373 21 HOH HOH . E 3 HOH A 12 374 22 HOH HOH . E 3 HOH A 13 375 23 HOH HOH . E 3 HOH A 14 376 24 HOH HOH . E 3 HOH A 15 377 25 HOH HOH . E 3 HOH A 16 378 29 HOH HOH . E 3 HOH A 17 379 35 HOH HOH . E 3 HOH A 18 380 36 HOH HOH . E 3 HOH A 19 381 38 HOH HOH . E 3 HOH A 20 382 39 HOH HOH . E 3 HOH A 21 383 40 HOH HOH . E 3 HOH A 22 384 42 HOH HOH . E 3 HOH A 23 385 45 HOH HOH . E 3 HOH A 24 386 51 HOH HOH . E 3 HOH A 25 387 53 HOH HOH . E 3 HOH A 26 388 65 HOH HOH . E 3 HOH A 27 389 71 HOH HOH . E 3 HOH A 28 390 73 HOH HOH . E 3 HOH A 29 391 74 HOH HOH . E 3 HOH A 30 392 79 HOH HOH . E 3 HOH A 31 393 83 HOH HOH . E 3 HOH A 32 394 91 HOH HOH . E 3 HOH A 33 395 92 HOH HOH . E 3 HOH A 34 396 93 HOH HOH . E 3 HOH A 35 397 107 HOH HOH . E 3 HOH A 36 398 110 HOH HOH . E 3 HOH A 37 399 111 HOH HOH . E 3 HOH A 38 401 120 HOH HOH . E 3 HOH A 39 402 121 HOH HOH . E 3 HOH A 40 403 127 HOH HOH . E 3 HOH A 41 404 130 HOH HOH . E 3 HOH A 42 405 135 HOH HOH . E 3 HOH A 43 406 136 HOH HOH . E 3 HOH A 44 407 137 HOH HOH . E 3 HOH A 45 408 151 HOH HOH . E 3 HOH A 46 409 159 HOH HOH . E 3 HOH A 47 410 168 HOH HOH . E 3 HOH A 48 411 171 HOH HOH . E 3 HOH A 49 412 191 HOH HOH . E 3 HOH A 50 413 194 HOH HOH . E 3 HOH A 51 414 218 HOH HOH . E 3 HOH A 52 415 223 HOH HOH . E 3 HOH A 53 416 224 HOH HOH . F 3 HOH B 1 363 7 HOH HOH . F 3 HOH B 2 364 10 HOH HOH . F 3 HOH B 3 365 12 HOH HOH . F 3 HOH B 4 366 14 HOH HOH . F 3 HOH B 5 367 20 HOH HOH . F 3 HOH B 6 368 26 HOH HOH . F 3 HOH B 7 369 30 HOH HOH . F 3 HOH B 8 370 31 HOH HOH . F 3 HOH B 9 371 34 HOH HOH . F 3 HOH B 10 372 50 HOH HOH . F 3 HOH B 11 373 58 HOH HOH . F 3 HOH B 12 374 60 HOH HOH . F 3 HOH B 13 375 67 HOH HOH . F 3 HOH B 14 376 75 HOH HOH . F 3 HOH B 15 377 76 HOH HOH . F 3 HOH B 16 378 78 HOH HOH . F 3 HOH B 17 379 82 HOH HOH . F 3 HOH B 18 380 84 HOH HOH . F 3 HOH B 19 381 85 HOH HOH . F 3 HOH B 20 382 88 HOH HOH . F 3 HOH B 21 383 89 HOH HOH . F 3 HOH B 22 384 103 HOH HOH . F 3 HOH B 23 385 109 HOH HOH . F 3 HOH B 24 386 117 HOH HOH . F 3 HOH B 25 387 119 HOH HOH . F 3 HOH B 26 388 129 HOH HOH . F 3 HOH B 27 389 152 HOH HOH . F 3 HOH B 28 390 155 HOH HOH . F 3 HOH B 29 391 160 HOH HOH . F 3 HOH B 30 392 166 HOH HOH . F 3 HOH B 31 393 187 HOH HOH . F 3 HOH B 32 394 189 HOH HOH . F 3 HOH B 33 395 215 HOH HOH . F 3 HOH B 34 396 219 HOH HOH . F 3 HOH B 35 397 220 HOH HOH . F 3 HOH B 36 398 222 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 . . . D 2 -15.071 34.379 7.707 1 29.97 ? PA NAD 400 B 1 HETATM 2 O O1A NAD . . . D 2 -15.798 35.354 6.832 1 29.55 ? O1A NAD 400 B 1 HETATM 3 O O2A NAD . . . D 2 -15.512 33.816 9.004 1 26.37 ? O2A NAD 400 B 1 HETATM 4 O O5B NAD . . . D 2 -13.571 34.936 7.744 1 33.07 ? O5B NAD 400 B 1 HETATM 5 C C5B NAD . . . D 2 -12.476 34.298 8.435 1 37.93 ? C5B NAD 400 B 1 HETATM 6 C C4B NAD . . . D 2 -11.748 35.337 9.331 1 40.78 ? C4B NAD 400 B 1 HETATM 7 O O4B NAD . . . D 2 -10.903 36.249 8.608 1 39.15 ? O4B NAD 400 B 1 HETATM 8 C C3B NAD . . . D 2 -12.684 36.239 10.133 1 41.86 ? C3B NAD 400 B 1 HETATM 9 O O3B NAD . . . D 2 -12.197 36.157 11.479 1 45.12 ? O3B NAD 400 B 1 HETATM 10 C C2B NAD . . . D 2 -12.496 37.642 9.571 1 40.71 ? C2B NAD 400 B 1 HETATM 11 O O2B NAD . . . D 2 -12.556 38.694 10.529 1 38.46 ? O2B NAD 400 B 1 HETATM 12 C C1B NAD . . . D 2 -11.072 37.601 9.071 1 40.51 ? C1B NAD 400 B 1 HETATM 13 N N9A NAD . . . D 2 -10.799 38.472 7.902 1 39.89 ? N9A NAD 400 B 1 HETATM 14 C C8A NAD . . . D 2 -11.636 38.737 6.881 1 40.24 ? C8A NAD 400 B 1 HETATM 15 N N7A NAD . . . D 2 -11.026 39.531 5.973 1 40.39 ? N7A NAD 400 B 1 HETATM 16 C C5A NAD . . . D 2 -9.79 39.737 6.453 1 39.71 ? C5A NAD 400 B 1 HETATM 17 C C6A NAD . . . D 2 -8.637 40.499 5.945 1 39.8 ? C6A NAD 400 B 1 HETATM 18 N N6A NAD . . . D 2 -8.738 41.142 4.755 1 38.74 ? N6A NAD 400 B 1 HETATM 19 N N1A NAD . . . D 2 -7.513 40.494 6.703 1 38.37 ? N1A NAD 400 B 1 HETATM 20 C C2A NAD . . . D 2 -7.459 39.83 7.869 1 38.84 ? C2A NAD 400 B 1 HETATM 21 N N3A NAD . . . D 2 -8.492 39.115 8.341 1 39.64 ? N3A NAD 400 B 1 HETATM 22 C C4A NAD . . . D 2 -9.646 39.066 7.66 1 38.91 ? C4A NAD 400 B 1 HETATM 23 O O3 NAD . . . D 2 -14.927 32.975 6.925 1 30 ? O3 NAD 400 B 1 HETATM 24 P PN NAD . . . D 2 -14.663 32.804 5.353 1 26.05 ? PN NAD 400 B 1 HETATM 25 O O1N NAD . . . D 2 -14.396 34.073 4.626 1 22.56 ? O1N NAD 400 B 1 HETATM 26 O O2N NAD . . . D 2 -13.718 31.667 5.184 1 28.52 ? O2N NAD 400 B 1 HETATM 27 O O5D NAD . . . D 2 -16.118 32.252 4.928 1 29.3 ? O5D NAD 400 B 1 HETATM 28 C C5D NAD . . . D 2 -16.817 31.306 5.756 1 26.26 ? C5D NAD 400 B 1 HETATM 29 C C4D NAD . . . D 2 -18.31 31.434 5.503 1 26.43 ? C4D NAD 400 B 1 HETATM 30 O O4D NAD . . . D 2 -18.567 31.551 4.103 1 26.56 ? O4D NAD 400 B 1 HETATM 31 C C3D NAD . . . D 2 -19.006 30.18 5.952 1 26.3 ? C3D NAD 400 B 1 HETATM 32 O O3D NAD . . . D 2 -19.994 30.569 6.89 1 24.28 ? O3D NAD 400 B 1 HETATM 33 C C2D NAD . . . D 2 -19.626 29.607 4.687 1 28.24 ? C2D NAD 400 B 1 HETATM 34 O O2D NAD . . . D 2 -20.898 28.979 4.887 1 29.02 ? O2D NAD 400 B 1 HETATM 35 C C1D NAD . . . D 2 -19.738 30.815 3.798 1 28.05 ? C1D NAD 400 B 1 HETATM 36 N N1N NAD . . . D 2 -19.817 30.424 2.39 1 30.66 ? N1N NAD 400 B 1 HETATM 37 C C2N NAD . . . D 2 -20.912 30.785 1.683 1 30.86 ? C2N NAD 400 B 1 HETATM 38 C C3N NAD . . . D 2 -21.091 30.439 0.337 1 30.7 ? C3N NAD 400 B 1 HETATM 39 C C7N NAD . . . D 2 -22.335 30.857 -0.455 1 31.78 ? C7N NAD 400 B 1 HETATM 40 O O7N NAD . . . D 2 -22.428 30.571 -1.632 1 31.68 ? O7N NAD 400 B 1 HETATM 41 N N7N NAD . . . D 2 -23.337 31.567 0.083 1 31.15 ? N7N NAD 400 B 1 HETATM 42 C C4N NAD . . . D 2 -20.063 29.722 -0.265 1 29.3 ? C4N NAD 400 B 1 HETATM 43 C C5N NAD . . . D 2 -18.937 29.357 0.461 1 30.51 ? C5N NAD 400 B 1 HETATM 44 C C6N NAD . . . D 2 -18.837 29.726 1.804 1 31.28 ? C6N NAD 400 B 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 48 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 44 #