data_1DFG # _model_server_result.job_id 2ovZYbHdQ-jtGT6EAmWMjw _model_server_result.datetime_utc '2024-10-30 13:18:45' _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 1dfg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 1DFG # _exptl.entry_id 1DFG _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 1DFG _cell.length_a 80.6 _cell.length_b 80.6 _cell.length_c 325.3 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DFG _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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' 10_665 -y+1,-x+1,-z+5/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 40.3 69.801648 271.083333 # 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 # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 D B1 NDT . A NDT 0 1_555 C O2D NAD . A NAD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale2 F B1 NDT . B NDT 0 1_555 E O2D NAD . B NAD 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.534 ? # _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 1DFG _atom_sites.fract_transf_matrix[1][1] 0.012407 _atom_sites.fract_transf_matrix[1][2] 0.007163 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014326 _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] 0.003074 _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 1 501 501 NAD NAD . D 3 NDT A 1 0 0 NDT NDT . E 2 NAD B 1 501 501 NAD NAD . F 3 NDT B 1 0 0 NDT NDT . # 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 2 6.245 16.711 135.716 1 20.25 ? PA NAD 501 A 1 HETATM 2 O O1A NAD . . . C 2 4.911 15.954 135.705 1 46.36 ? O1A NAD 501 A 1 HETATM 3 O O2A NAD . . . C 2 7.506 16.058 135.158 1 22.42 ? O2A NAD 501 A 1 HETATM 4 O O5B NAD . . . C 2 6.591 17.227 137.204 1 33.11 ? O5B NAD 501 A 1 HETATM 5 C C5B NAD . . . C 2 5.537 17.518 138.191 1 15.53 ? C5B NAD 501 A 1 HETATM 6 C C4B NAD . . . C 2 5.865 16.818 139.385 1 10.37 ? C4B NAD 501 A 1 HETATM 7 O O4B NAD . . . C 2 4.906 17.118 140.519 1 44.36 ? O4B NAD 501 A 1 HETATM 8 C C3B NAD . . . C 2 5.933 15.249 139.326 1 25.12 ? C3B NAD 501 A 1 HETATM 9 O O3B NAD . . . C 2 7.378 14.907 139.603 1 12.53 ? O3B NAD 501 A 1 HETATM 10 C C2B NAD . . . C 2 5 14.721 140.431 1 16.68 ? C2B NAD 501 A 1 HETATM 11 O O2B NAD . . . C 2 5.373 13.563 141.038 1 28.55 ? O2B NAD 501 A 1 HETATM 12 C C1B NAD . . . C 2 4.988 16.028 141.345 1 7.26 ? C1B NAD 501 A 1 HETATM 13 N N9A NAD . . . C 2 3.929 16.114 142.335 1 32.95 ? N9A NAD 501 A 1 HETATM 14 C C8A NAD . . . C 2 2.556 16.165 142.203 1 1 ? C8A NAD 501 A 1 HETATM 15 N N7A NAD . . . C 2 1.86 16.028 143.329 1 32.81 ? N7A NAD 501 A 1 HETATM 16 C C5A NAD . . . C 2 2.752 15.847 144.299 1 25.29 ? C5A NAD 501 A 1 HETATM 17 C C6A NAD . . . C 2 2.568 15.598 145.751 1 18.72 ? C6A NAD 501 A 1 HETATM 18 N N6A NAD . . . C 2 1.455 15.518 146.369 1 25.69 ? N6A NAD 501 A 1 HETATM 19 N N1A NAD . . . C 2 3.731 15.439 146.417 1 23.2 ? N1A NAD 501 A 1 HETATM 20 C C2A NAD . . . C 2 4.92 15.447 145.871 1 14.6 ? C2A NAD 501 A 1 HETATM 21 N N3A NAD . . . C 2 5.16 15.637 144.493 1 20.41 ? N3A NAD 501 A 1 HETATM 22 C C4A NAD . . . C 2 4.047 15.885 143.73 1 5.12 ? C4A NAD 501 A 1 HETATM 23 O O3 NAD . . . C 2 6.025 18.085 135.036 1 33.82 ? O3 NAD 501 A 1 HETATM 24 P PN NAD . . . C 2 7.007 19.262 134.505 1 16.54 ? PN NAD 501 A 1 HETATM 25 O O1N NAD . . . C 2 6.632 19.533 133.134 1 41.68 ? O1N NAD 501 A 1 HETATM 26 O O2N NAD . . . C 2 8.417 18.965 134.96 1 35.6 ? O2N NAD 501 A 1 HETATM 27 O O5D NAD . . . C 2 6.481 20.415 135.425 1 23.85 ? O5D NAD 501 A 1 HETATM 28 C C5D NAD . . . C 2 7.302 20.985 136.455 1 11.42 ? C5D NAD 501 A 1 HETATM 29 C C4D NAD . . . C 2 6.669 22.197 136.907 1 9.39 ? C4D NAD 501 A 1 HETATM 30 O O4D NAD . . . C 2 6.914 23.196 135.814 1 21.51 ? O4D NAD 501 A 1 HETATM 31 C C3D NAD . . . C 2 5.084 22.222 136.927 1 34.43 ? C3D NAD 501 A 1 HETATM 32 O O3D NAD . . . C 2 4.817 23.071 137.919 1 17.92 ? O3D NAD 501 A 1 HETATM 33 C C2D NAD . . . C 2 4.594 22.83 135.609 1 23.93 ? C2D NAD 501 A 1 HETATM 34 O O2D NAD . . . C 2 3.383 23.508 135.791 1 18.09 ? O2D NAD 501 A 1 HETATM 35 C C1D NAD . . . C 2 5.732 23.805 135.447 1 6.4 ? C1D NAD 501 A 1 HETATM 36 N N1N NAD . . . C 2 5.923 24.255 134.039 1 14.25 ? N1N NAD 501 A 1 HETATM 37 C C2N NAD . . . C 2 5.976 23.342 133.021 1 15.63 ? C2N NAD 501 A 1 HETATM 38 C C3N NAD . . . C 2 6.147 23.967 131.808 1 16.48 ? C3N NAD 501 A 1 HETATM 39 C C7N NAD . . . C 2 6.201 22.963 130.626 1 24.27 ? C7N NAD 501 A 1 HETATM 40 O O7N NAD . . . C 2 6.325 23.469 129.53 1 23.58 ? O7N NAD 501 A 1 HETATM 41 N N7N NAD . . . C 2 6.137 21.614 130.878 1 5.06 ? N7N NAD 501 A 1 HETATM 42 C C4N NAD . . . C 2 6.254 25.322 131.546 1 25.65 ? C4N NAD 501 A 1 HETATM 43 C C5N NAD . . . C 2 6.144 26.111 132.7 1 28.91 ? C5N NAD 501 A 1 HETATM 44 C C6N NAD . . . C 2 5.987 25.571 133.922 1 1.91 ? C6N NAD 501 A 1 # _model_server_stats.io_time_ms 100 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 44 #