data_3NJ8 # _model_server_result.job_id 0KfS-tL-rEv2fOTvOXX3UA _model_server_result.datetime_utc '2024-12-29 02:57:04' _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 3nj8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":316}' # _entry.id 3NJ8 # _exptl.entry_id 3NJ8 _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 120 _cell.entry_id 3NJ8 _cell.length_a 78.256 _cell.length_b 78.256 _cell.length_c 189.077 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NJ8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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' 6_765 -x+2,-x+y+1,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 117.384 67.771684 126.051333 # 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 E 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 224 n n PA O2A NAD sing 225 n n PA O5B NAD sing 226 n n PA O3 NAD sing 227 n n O2A HOA2 NAD sing 228 n n O5B C5B NAD sing 229 n n C5B C4B NAD sing 230 n n C5B H51A NAD sing 231 n n C5B H52A NAD sing 232 n n C4B O4B NAD sing 233 n n C4B C3B NAD sing 234 n n C4B H4B NAD sing 235 n n O4B C1B NAD sing 236 n n C3B O3B NAD sing 237 n n C3B C2B NAD sing 238 n n C3B H3B NAD sing 239 n n O3B HO3A NAD sing 240 n n C2B O2B NAD sing 241 n n C2B C1B NAD sing 242 n n C2B H2B NAD sing 243 n n O2B HO2A NAD sing 244 n n C1B N9A NAD sing 245 n n C1B H1B NAD sing 246 n n N9A C8A NAD sing 247 n y N9A C4A NAD sing 248 n y C8A N7A NAD doub 249 n y C8A H8A NAD sing 250 n n N7A C5A NAD sing 251 n y C5A C6A NAD sing 252 n y C5A C4A NAD doub 253 n y C6A N6A NAD sing 254 n n C6A N1A NAD doub 255 n y N6A H61A NAD sing 256 n n N6A H62A NAD sing 257 n n N1A C2A NAD sing 258 n y C2A N3A NAD doub 259 n y C2A H2A NAD sing 260 n n N3A C4A NAD sing 261 n y O3 PN NAD sing 262 n n PN O1N NAD doub 263 n n PN O2N NAD sing 264 n n PN O5D NAD sing 265 n n O5D C5D NAD sing 266 n n C5D C4D NAD sing 267 n n C5D H51N NAD sing 268 n n C5D H52N NAD sing 269 n n C4D O4D NAD sing 270 n n C4D C3D NAD sing 271 n n C4D H4D NAD sing 272 n n O4D C1D NAD sing 273 n n C3D O3D NAD sing 274 n n C3D C2D NAD sing 275 n n C3D H3D NAD sing 276 n n O3D HO3N NAD sing 277 n n C2D O2D NAD sing 278 n n C2D C1D NAD sing 279 n n C2D H2D NAD sing 280 n n O2D HO2N NAD sing 281 n n C1D N1N NAD sing 282 n n C1D H1D NAD sing 283 n n N1N C2N NAD sing 284 n y N1N C6N NAD doub 285 n y C2N C3N NAD doub 286 n y C2N H2N NAD sing 287 n n C3N C7N NAD sing 288 n n C3N C4N NAD sing 289 n y C7N O7N NAD doub 290 n n C7N N7N NAD sing 291 n n N7N H71N NAD sing 292 n n N7N H72N NAD sing 293 n n C4N C5N NAD doub 294 n y C4N H4N NAD sing 295 n n C5N C6N NAD sing 296 n y C5N H5N NAD sing 297 n n C6N H6N NAD sing 298 n n # _atom_sites.entry_id 3NJ8 _atom_sites.fract_transf_matrix[1][1] 0.012779 _atom_sites.fract_transf_matrix[1][2] 0.007378 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014755 _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] 0.005289 _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 1 316 1 NAD NAD . D 3 NJ8 A 1 501 501 NJ8 NJ8 . E 2 NAD B 1 316 1 NAD NAD . F 3 NJ8 B 1 501 501 NJ8 NJ8 . G 4 HOH A 1 317 1 HOH HOH . G 4 HOH A 2 318 2 HOH HOH . G 4 HOH A 3 319 5 HOH HOH . G 4 HOH A 4 320 6 HOH HOH . G 4 HOH A 5 321 7 HOH HOH . G 4 HOH A 6 322 8 HOH HOH . G 4 HOH A 7 323 12 HOH HOH . G 4 HOH A 8 324 16 HOH HOH . G 4 HOH A 9 325 21 HOH HOH . G 4 HOH A 10 326 23 HOH HOH . G 4 HOH A 11 327 25 HOH HOH . G 4 HOH A 12 328 27 HOH HOH . G 4 HOH A 13 329 28 HOH HOH . G 4 HOH A 14 330 29 HOH HOH . G 4 HOH A 15 331 32 HOH HOH . G 4 HOH A 16 332 34 HOH HOH . G 4 HOH A 17 333 36 HOH HOH . G 4 HOH A 18 334 37 HOH HOH . G 4 HOH A 19 335 38 HOH HOH . G 4 HOH A 20 336 39 HOH HOH . G 4 HOH A 21 337 44 HOH HOH . G 4 HOH A 22 338 46 HOH HOH . H 4 HOH B 1 317 3 HOH HOH . H 4 HOH B 2 318 4 HOH HOH . H 4 HOH B 3 319 9 HOH HOH . H 4 HOH B 4 320 10 HOH HOH . H 4 HOH B 5 321 11 HOH HOH . H 4 HOH B 6 322 13 HOH HOH . H 4 HOH B 7 323 14 HOH HOH . H 4 HOH B 8 324 15 HOH HOH . H 4 HOH B 9 325 17 HOH HOH . H 4 HOH B 10 326 18 HOH HOH . H 4 HOH B 11 327 19 HOH HOH . H 4 HOH B 12 328 20 HOH HOH . H 4 HOH B 13 329 22 HOH HOH . H 4 HOH B 14 330 24 HOH HOH . H 4 HOH B 15 331 26 HOH HOH . H 4 HOH B 16 332 30 HOH HOH . H 4 HOH B 17 333 31 HOH HOH . H 4 HOH B 18 334 33 HOH HOH . H 4 HOH B 19 335 35 HOH HOH . H 4 HOH B 20 336 40 HOH HOH . H 4 HOH B 21 337 41 HOH HOH . H 4 HOH B 22 338 42 HOH HOH . H 4 HOH B 23 339 43 HOH HOH . H 4 HOH B 24 340 45 HOH HOH . H 4 HOH B 25 341 47 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 . . . E 2 53.31 40.423 37.502 1 34.32 ? PA NAD 316 B 1 HETATM 2 O O1A NAD . . . E 2 54.163 39.235 37.725 1 34.19 ? O1A NAD 316 B 1 HETATM 3 O O2A NAD . . . E 2 52.56 40.304 36.233 1 34.54 ? O2A NAD 316 B 1 HETATM 4 O O5B NAD . . . E 2 54.218 41.752 37.523 1 35.47 ? O5B NAD 316 B 1 HETATM 5 C C5B NAD . . . E 2 53.623 43.034 37.56 1 36.59 ? C5B NAD 316 B 1 HETATM 6 C C4B NAD . . . E 2 53.473 43.512 36.127 1 37.46 ? C4B NAD 316 B 1 HETATM 7 O O4B NAD . . . E 2 53.866 44.867 35.992 1 38.07 ? O4B NAD 316 B 1 HETATM 8 C C3B NAD . . . E 2 54.388 42.69 35.234 1 37.8 ? C3B NAD 316 B 1 HETATM 9 O O3B NAD . . . E 2 53.654 42.205 34.134 1 37.83 ? O3B NAD 316 B 1 HETATM 10 C C2B NAD . . . E 2 55.438 43.672 34.771 1 38.15 ? C2B NAD 316 B 1 HETATM 11 O O2B NAD . . . E 2 55.857 43.384 33.459 1 38.33 ? O2B NAD 316 B 1 HETATM 12 C C1B NAD . . . E 2 54.666 44.975 34.83 1 38.47 ? C1B NAD 316 B 1 HETATM 13 N N9A NAD . . . E 2 55.566 46.143 34.809 1 39.1 ? N9A NAD 316 B 1 HETATM 14 C C8A NAD . . . E 2 56.814 46.255 35.367 1 39.22 ? C8A NAD 316 B 1 HETATM 15 N N7A NAD . . . E 2 57.289 47.495 35.094 1 39.37 ? N7A NAD 316 B 1 HETATM 16 C C5A NAD . . . E 2 56.369 48.172 34.368 1 39.5 ? C5A NAD 316 B 1 HETATM 17 C C6A NAD . . . E 2 56.345 49.459 33.832 1 39.63 ? C6A NAD 316 B 1 HETATM 18 N N6A NAD . . . E 2 57.22 50.37 34.254 1 39.52 ? N6A NAD 316 B 1 HETATM 19 N N1A NAD . . . E 2 55.235 49.871 33.118 1 39.66 ? N1A NAD 316 B 1 HETATM 20 C C2A NAD . . . E 2 54.164 49.016 32.941 1 39.47 ? C2A NAD 316 B 1 HETATM 21 N N3A NAD . . . E 2 54.198 47.745 33.478 1 39.46 ? N3A NAD 316 B 1 HETATM 22 C C4A NAD . . . E 2 55.282 47.329 34.18 1 39.34 ? C4A NAD 316 B 1 HETATM 23 O O3 NAD . . . E 2 52.301 40.66 38.735 1 33.94 ? O3 NAD 316 B 1 HETATM 24 P PN NAD . . . E 2 52.666 40.164 40.221 1 33.43 ? PN NAD 316 B 1 HETATM 25 O O1N NAD . . . E 2 54.125 39.939 40.306 1 33.42 ? O1N NAD 316 B 1 HETATM 26 O O2N NAD . . . E 2 51.704 39.103 40.599 1 33.4 ? O2N NAD 316 B 1 HETATM 27 O O5D NAD . . . E 2 52.358 41.427 41.149 1 33.45 ? O5D NAD 316 B 1 HETATM 28 C C5D NAD . . . E 2 51.578 42.507 40.706 1 33.59 ? C5D NAD 316 B 1 HETATM 29 C C4D NAD . . . E 2 51.575 43.483 41.868 1 33.74 ? C4D NAD 316 B 1 HETATM 30 O O4D NAD . . . E 2 51.334 42.747 43.05 1 33.65 ? O4D NAD 316 B 1 HETATM 31 C C3D NAD . . . E 2 52.934 44.148 42.015 1 33.73 ? C3D NAD 316 B 1 HETATM 32 O O3D NAD . . . E 2 52.746 45.526 42.21 1 33.77 ? O3D NAD 316 B 1 HETATM 33 C C2D NAD . . . E 2 53.549 43.543 43.258 1 33.84 ? C2D NAD 316 B 1 HETATM 34 O O2D NAD . . . E 2 54.181 44.541 44.021 1 33.68 ? O2D NAD 316 B 1 HETATM 35 C C1D NAD . . . E 2 52.351 42.984 44.007 1 33.94 ? C1D NAD 316 B 1 HETATM 36 N N1N NAD . . . E 2 52.65 41.783 44.819 1 34.01 ? N1N NAD 316 B 1 HETATM 37 C C2N NAD . . . E 2 52.873 40.542 44.275 1 34 ? C2N NAD 316 B 1 HETATM 38 C C3N NAD . . . E 2 53.137 39.454 45.114 1 33.99 ? C3N NAD 316 B 1 HETATM 39 C C7N NAD . . . E 2 53.231 38.05 44.596 1 33.94 ? C7N NAD 316 B 1 HETATM 40 O O7N NAD . . . E 2 52.96 37.237 45.594 1 34.03 ? O7N NAD 316 B 1 HETATM 41 N N7N NAD . . . E 2 53.611 37.831 43.338 1 34.12 ? N7N NAD 316 B 1 HETATM 42 C C4N NAD . . . E 2 53.168 39.629 46.489 1 33.93 ? C4N NAD 316 B 1 HETATM 43 C C5N NAD . . . E 2 52.935 40.886 47.022 1 34.43 ? C5N NAD 316 B 1 HETATM 44 C C6N NAD . . . E 2 52.674 41.951 46.173 1 34.16 ? C6N NAD 316 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 259 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 44 #