data_8YLT # _model_server_result.job_id sUa7CYc1HFnVK92xmyRHcw _model_server_result.datetime_utc '2024-10-14 04:20:59' _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 8ylt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1101}' # _entry.id 8YLT # _exptl.entry_id 8YLT _exptl.method 'ELECTRON MICROSCOPY' # _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 4 _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 8YLT _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8YLT _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? _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 E N N ? 2 F N N ? 2 G N N ? 2 H 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 235 n n PA O2A NAD sing 236 n n PA O5B NAD sing 237 n n PA O3 NAD sing 238 n n O2A HOA2 NAD sing 239 n n O5B C5B NAD sing 240 n n C5B C4B NAD sing 241 n n C5B H51A NAD sing 242 n n C5B H52A NAD sing 243 n n C4B O4B NAD sing 244 n n C4B C3B NAD sing 245 n n C4B H4B NAD sing 246 n n O4B C1B NAD sing 247 n n C3B O3B NAD sing 248 n n C3B C2B NAD sing 249 n n C3B H3B NAD sing 250 n n O3B HO3A NAD sing 251 n n C2B O2B NAD sing 252 n n C2B C1B NAD sing 253 n n C2B H2B NAD sing 254 n n O2B HO2A NAD sing 255 n n C1B N9A NAD sing 256 n n C1B H1B NAD sing 257 n n N9A C8A NAD sing 258 n y N9A C4A NAD sing 259 n y C8A N7A NAD doub 260 n y C8A H8A NAD sing 261 n n N7A C5A NAD sing 262 n y C5A C6A NAD sing 263 n y C5A C4A NAD doub 264 n y C6A N6A NAD sing 265 n n C6A N1A NAD doub 266 n y N6A H61A NAD sing 267 n n N6A H62A NAD sing 268 n n N1A C2A NAD sing 269 n y C2A N3A NAD doub 270 n y C2A H2A NAD sing 271 n n N3A C4A NAD sing 272 n y O3 PN NAD sing 273 n n PN O1N NAD doub 274 n n PN O2N NAD sing 275 n n PN O5D NAD sing 276 n n O5D C5D NAD sing 277 n n C5D C4D NAD sing 278 n n C5D H51N NAD sing 279 n n C5D H52N NAD sing 280 n n C4D O4D NAD sing 281 n n C4D C3D NAD sing 282 n n C4D H4D NAD sing 283 n n O4D C1D NAD sing 284 n n C3D O3D NAD sing 285 n n C3D C2D NAD sing 286 n n C3D H3D NAD sing 287 n n O3D HO3N NAD sing 288 n n C2D O2D NAD sing 289 n n C2D C1D NAD sing 290 n n C2D H2D NAD sing 291 n n O2D HO2N NAD sing 292 n n C1D N1N NAD sing 293 n n C1D H1D NAD sing 294 n n N1N C2N NAD sing 295 n y N1N C6N NAD doub 296 n y C2N C3N NAD doub 297 n y C2N H2N NAD sing 298 n n C3N C7N NAD sing 299 n n C3N C4N NAD sing 300 n y C7N O7N NAD doub 301 n n C7N N7N NAD sing 302 n n N7N H71N NAD sing 303 n n N7N H72N NAD sing 304 n n C4N C5N NAD doub 305 n y C4N H4N NAD sing 306 n n C5N C6N NAD sing 307 n y C5N H5N NAD sing 308 n n C6N H6N NAD sing 309 n n # _atom_sites.entry_id 8YLT _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 E 2 NAD A 1 1101 1110 NAD NAD . F 2 NAD B 1 1101 1110 NAD NAD . G 2 NAD C 1 1101 1110 NAD NAD . H 2 NAD D 1 1101 1110 NAD NAD . # 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 2 216.462 194.866 251.797 1 136.26 ? PA NAD 1101 A 1 HETATM 2 O O1A NAD . . . E 2 216.39 193.371 251.612 1 138.36 ? O1A NAD 1101 A 1 HETATM 3 O O2A NAD . . . E 2 215.195 195.631 252.081 1 133.62 ? O2A NAD 1101 A 1 HETATM 4 O O5B NAD . . . E 2 217.163 195.5 250.504 1 132.08 ? O5B NAD 1101 A 1 HETATM 5 C C5B NAD . . . E 2 216.912 196.813 250.014 1 127.22 ? C5B NAD 1101 A 1 HETATM 6 C C4B NAD . . . E 2 217.07 196.749 248.508 1 124.37 ? C4B NAD 1101 A 1 HETATM 7 O O4B NAD . . . E 2 218.06 195.766 248.206 1 127.66 ? O4B NAD 1101 A 1 HETATM 8 C C3B NAD . . . E 2 215.779 196.34 247.819 1 124.2 ? C3B NAD 1101 A 1 HETATM 9 O O3B NAD . . . E 2 215.345 197.307 246.863 1 120.55 ? O3B NAD 1101 A 1 HETATM 10 C C2B NAD . . . E 2 216.094 195.037 247.134 1 126.96 ? C2B NAD 1101 A 1 HETATM 11 O O2B NAD . . . E 2 215.609 194.998 245.799 1 125.42 ? O2B NAD 1101 A 1 HETATM 12 C C1B NAD . . . E 2 217.603 194.956 247.126 1 127.84 ? C1B NAD 1101 A 1 HETATM 13 N N9A NAD . . . E 2 217.964 193.522 247.219 1 130.8 ? N9A NAD 1101 A 1 HETATM 14 C C8A NAD . . . E 2 217.935 192.737 248.306 1 133.27 ? C8A NAD 1101 A 1 HETATM 15 N N7A NAD . . . E 2 218.325 191.477 247.99 1 135.38 ? N7A NAD 1101 A 1 HETATM 16 C C5A NAD . . . E 2 218.6 191.455 246.676 1 132.87 ? C5A NAD 1101 A 1 HETATM 17 C C6A NAD . . . E 2 219.059 190.46 245.691 1 132.91 ? C6A NAD 1101 A 1 HETATM 18 N N6A NAD . . . E 2 219.309 189.186 246.06 1 134.66 ? N6A NAD 1101 A 1 HETATM 19 N N1A NAD . . . E 2 219.216 190.86 244.414 1 131.07 ? N1A NAD 1101 A 1 HETATM 20 C C2A NAD . . . E 2 218.974 192.12 244.025 1 129.34 ? C2A NAD 1101 A 1 HETATM 21 N N3A NAD . . . E 2 218.555 193.069 244.867 1 129.5 ? N3A NAD 1101 A 1 HETATM 22 C C4A NAD . . . E 2 218.353 192.804 246.175 1 130.79 ? C4A NAD 1101 A 1 HETATM 23 O O3 NAD . . . E 2 217.514 195.17 252.975 1 140.68 ? O3 NAD 1101 A 1 HETATM 24 P PN NAD . . . E 2 219.069 194.765 252.882 1 142.84 ? PN NAD 1101 A 1 HETATM 25 O O1N NAD . . . E 2 219.73 195.186 254.17 1 144.4 ? O1N NAD 1101 A 1 HETATM 26 O O2N NAD . . . E 2 219.63 195.264 251.574 1 141.4 ? O2N NAD 1101 A 1 HETATM 27 O O5D NAD . . . E 2 219.056 193.158 252.855 1 144.89 ? O5D NAD 1101 A 1 HETATM 28 C C5D NAD . . . E 2 219.635 192.507 251.731 1 144.12 ? C5D NAD 1101 A 1 HETATM 29 C C4D NAD . . . E 2 219.71 190.99 251.867 1 145.61 ? C4D NAD 1101 A 1 HETATM 30 O O4D NAD . . . E 2 220.706 190.621 252.825 1 146.88 ? O4D NAD 1101 A 1 HETATM 31 C C3D NAD . . . E 2 218.408 190.339 252.31 1 146.66 ? C3D NAD 1101 A 1 HETATM 32 O O3D NAD . . . E 2 217.704 189.803 251.191 1 146.14 ? O3D NAD 1101 A 1 HETATM 33 C C2D NAD . . . E 2 218.824 189.258 253.283 1 147.98 ? C2D NAD 1101 A 1 HETATM 34 O O2D NAD . . . E 2 218.472 187.959 252.804 1 148.15 ? O2D NAD 1101 A 1 HETATM 35 C C1D NAD . . . E 2 220.332 189.381 253.426 1 147.93 ? C1D NAD 1101 A 1 HETATM 36 N N1N NAD . . . E 2 220.678 189.324 254.843 1 148.57 ? N1N NAD 1101 A 1 HETATM 37 C C2N NAD . . . E 2 220.586 190.422 255.599 1 148.9 ? C2N NAD 1101 A 1 HETATM 38 C C3N NAD . . . E 2 220.905 190.365 256.943 1 150.2 ? C3N NAD 1101 A 1 HETATM 39 C C7N NAD . . . E 2 220.805 191.599 257.771 1 150.96 ? C7N NAD 1101 A 1 HETATM 40 O O7N NAD . . . E 2 221.821 192.049 258.255 1 150.91 ? O7N NAD 1101 A 1 HETATM 41 N N7N NAD . . . E 2 219.622 192.176 257.946 1 150.61 ? N7N NAD 1101 A 1 HETATM 42 C C4N NAD . . . E 2 221.321 189.175 257.509 1 151.55 ? C4N NAD 1101 A 1 HETATM 43 C C5N NAD . . . E 2 221.403 188.053 256.703 1 150.22 ? C5N NAD 1101 A 1 HETATM 44 C C6N NAD . . . E 2 221.071 188.156 255.361 1 149.22 ? C6N NAD 1101 A 1 HETATM 45 H H51A NAD . . . E 2 215.907 197.157 250.262 1 127.22 ? H51A NAD 1101 A 1 HETATM 46 H H52A NAD . . . E 2 217.634 197.514 250.436 1 127.22 ? H52A NAD 1101 A 1 HETATM 47 H H4B NAD . . . E 2 217.378 197.735 248.136 1 124.37 ? H4B NAD 1101 A 1 HETATM 48 H H3B NAD . . . E 2 215.002 196.171 248.577 1 124.2 ? H3B NAD 1101 A 1 HETATM 49 H HO3A NAD . . . E 2 214.664 196.918 246.297 1 124.2 ? HO3A NAD 1101 A 1 HETATM 50 H H2B NAD . . . E 2 215.677 194.207 247.721 1 126.96 ? H2B NAD 1101 A 1 HETATM 51 H HO2A NAD . . . E 2 214.68 194.736 245.805 1 126.96 ? HO2A NAD 1101 A 1 HETATM 52 H H1B NAD . . . E 2 217.995 195.375 246.2 1 127.84 ? H1B NAD 1101 A 1 HETATM 53 H H8A NAD . . . E 2 217.648 193.067 249.294 1 133.27 ? H8A NAD 1101 A 1 HETATM 54 H H61A NAD . . . E 2 219.184 188.907 247.022 1 134.66 ? H61A NAD 1101 A 1 HETATM 55 H H62A NAD . . . E 2 219.623 188.515 245.374 1 134.66 ? H62A NAD 1101 A 1 HETATM 56 H H2A NAD . . . E 2 219.117 192.383 242.987 1 129.34 ? H2A NAD 1101 A 1 HETATM 57 H H51N NAD . . . E 2 219.067 192.754 250.835 1 144.12 ? H51N NAD 1101 A 1 HETATM 58 H H52N NAD . . . E 2 220.65 192.886 251.601 1 144.12 ? H52N NAD 1101 A 1 HETATM 59 H H4D NAD . . . E 2 219.97 190.569 250.887 1 145.61 ? H4D NAD 1101 A 1 HETATM 60 H H3D NAD . . . E 2 217.776 191.065 252.838 1 146.66 ? H3D NAD 1101 A 1 HETATM 61 H HO3N NAD . . . E 2 216.851 189.456 251.486 1 146.66 ? HO3N NAD 1101 A 1 HETATM 62 H H2D NAD . . . E 2 218.351 189.447 254.256 1 147.98 ? H2D NAD 1101 A 1 HETATM 63 H HO2N NAD . . . E 2 217.51 187.881 252.765 1 147.98 ? HO2N NAD 1101 A 1 HETATM 64 H H1D NAD . . . E 2 220.813 188.552 252.89 1 147.93 ? H1D NAD 1101 A 1 HETATM 65 H H2N NAD . . . E 2 220.262 191.363 255.171 1 148.9 ? H2N NAD 1101 A 1 HETATM 66 H H71N NAD . . . E 2 218.797 191.776 257.525 1 150.61 ? H71N NAD 1101 A 1 HETATM 67 H H72N NAD . . . E 2 219.552 193.013 258.506 1 150.61 ? H72N NAD 1101 A 1 HETATM 68 H H4N NAD . . . E 2 221.575 189.122 258.561 1 151.55 ? H4N NAD 1101 A 1 HETATM 69 H H5N NAD . . . E 2 221.725 187.106 257.115 1 150.22 ? H5N NAD 1101 A 1 HETATM 70 H H6N NAD . . . E 2 221.134 187.283 254.725 1 149.22 ? H6N NAD 1101 A 1 # _model_server_stats.io_time_ms 32 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 345 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 70 #