data_2FRD # _model_server_result.job_id 4SclecOoSj7i5gNeoUXpIQ _model_server_result.datetime_utc '2024-11-08 19:46:08' _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 2frd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":500}' # _entry.id 2FRD # _exptl.entry_id 2FRD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 665.441 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1,4-DIHYDRONICOTINAMIDE 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 2FRD _cell.length_a 71.3 _cell.length_b 74.11 _cell.length_c 205.22 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2FRD _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 ? 3 D N N ? 3 E N N # _chem_comp.formula 'C21 H29 N7 O14 P2' _chem_comp.formula_weight 665.441 _chem_comp.id NAI _chem_comp.mon_nstd_flag . _chem_comp.name '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms NADH # 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 NAI doub 237 n n PA O2A NAI sing 238 n n PA O5B NAI sing 239 n n PA O3 NAI sing 240 n n O2A HOA2 NAI sing 241 n n O5B C5B NAI sing 242 n n C5B C4B NAI sing 243 n n C5B H51A NAI sing 244 n n C5B H52A NAI sing 245 n n C4B O4B NAI sing 246 n n C4B C3B NAI sing 247 n n C4B H4B NAI sing 248 n n O4B C1B NAI sing 249 n n C3B O3B NAI sing 250 n n C3B C2B NAI sing 251 n n C3B H3B NAI sing 252 n n O3B HO3A NAI sing 253 n n C2B O2B NAI sing 254 n n C2B C1B NAI sing 255 n n C2B H2B NAI sing 256 n n O2B HO2A NAI sing 257 n n C1B N9A NAI sing 258 n n C1B H1B NAI sing 259 n n N9A C8A NAI sing 260 n y N9A C4A NAI sing 261 n y C8A N7A NAI doub 262 n y C8A H8A NAI sing 263 n n N7A C5A NAI sing 264 n y C5A C6A NAI sing 265 n y C5A C4A NAI doub 266 n y C6A N6A NAI sing 267 n n C6A N1A NAI doub 268 n y N6A H61A NAI sing 269 n n N6A H62A NAI sing 270 n n N1A C2A NAI sing 271 n y C2A N3A NAI doub 272 n y C2A H2A NAI sing 273 n n N3A C4A NAI sing 274 n y O3 PN NAI sing 275 n n PN O1N NAI sing 276 n n PN O2N NAI doub 277 n n PN O5D NAI sing 278 n n O1N HO1N NAI sing 279 n n O5D C5D NAI sing 280 n n C5D C4D NAI sing 281 n n C5D H51N NAI sing 282 n n C5D H52N NAI sing 283 n n C4D O4D NAI sing 284 n n C4D C3D NAI sing 285 n n C4D H4D NAI sing 286 n n O4D C1D NAI sing 287 n n C3D O3D NAI sing 288 n n C3D C2D NAI sing 289 n n C3D H3D NAI sing 290 n n O3D HO3N NAI sing 291 n n C2D O2D NAI sing 292 n n C2D C1D NAI sing 293 n n C2D H2D NAI sing 294 n n O2D HO2N NAI sing 295 n n C1D N1N NAI sing 296 n n C1D H1D NAI sing 297 n n N1N C2N NAI sing 298 n n N1N C6N NAI sing 299 n n C2N C3N NAI doub 300 n n C2N H2N NAI sing 301 n n C3N C7N NAI sing 302 n n C3N C4N NAI sing 303 n n C7N O7N NAI doub 304 n n C7N N7N NAI sing 305 n n N7N H71N NAI sing 306 n n N7N H72N NAI sing 307 n n C4N C5N NAI sing 308 n n C4N H4N NAI sing 309 n n C4N H42N NAI sing 310 n n C5N C6N NAI doub 311 n n C5N H5N NAI sing 312 n n C6N H6N NAI sing 313 n n # _atom_sites.entry_id 2FRD _atom_sites.fract_transf_matrix[1][1] 0.014025 _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] 0.013493 _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] 0.004873 _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 D 3 NAI A 1 500 500 NAI NAD . E 3 NAI B 1 600 600 NAI NAD . F 4 NDP C 1 300 300 NDP NAP . G 5 HOH B 1 601 1 HOH HOH . G 5 HOH B 2 602 2 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 NAI . . . D 3 -7.719 6.416 26.863 1 49.56 ? PA NAI 500 A 1 HETATM 2 O O1A NAI . . . D 3 -6.96 5.284 27.445 1 48.25 ? O1A NAI 500 A 1 HETATM 3 O O2A NAI . . . D 3 -7.264 7.717 27.412 1 49.84 ? O2A NAI 500 A 1 HETATM 4 O O5B NAI . . . D 3 -9.294 6.215 27.121 1 51.05 ? O5B NAI 500 A 1 HETATM 5 C C5B NAI . . . D 3 -9.95 5.097 26.568 1 53.02 ? C5B NAI 500 A 1 HETATM 6 C C4B NAI . . . D 3 -11.104 5.478 25.639 1 54.57 ? C4B NAI 500 A 1 HETATM 7 O O4B NAI . . . D 3 -12.234 5.799 26.42 1 56.62 ? O4B NAI 500 A 1 HETATM 8 C C3B NAI . . . D 3 -10.884 6.66 24.701 1 54.14 ? C3B NAI 500 A 1 HETATM 9 O O3B NAI . . . D 3 -10.895 6.205 23.375 1 54.64 ? O3B NAI 500 A 1 HETATM 10 C C2B NAI . . . D 3 -12.049 7.596 24.926 1 54.38 ? C2B NAI 500 A 1 HETATM 11 O O2B NAI . . . D 3 -12.67 7.94 23.712 1 51.46 ? O2B NAI 500 A 1 HETATM 12 C C1B NAI . . . D 3 -13 6.819 25.82 1 55.99 ? C1B NAI 500 A 1 HETATM 13 N N9A NAI . . . D 3 -13.639 7.629 26.88 1 58.74 ? N9A NAI 500 A 1 HETATM 14 C C8A NAI . . . D 3 -13.035 8.432 27.818 1 59.01 ? C8A NAI 500 A 1 HETATM 15 N N7A NAI . . . D 3 -13.994 8.976 28.607 1 59.66 ? N7A NAI 500 A 1 HETATM 16 C C5A NAI . . . D 3 -15.204 8.52 28.199 1 60.9 ? C5A NAI 500 A 1 HETATM 17 C C6A NAI . . . D 3 -16.512 8.737 28.645 1 60.9 ? C6A NAI 500 A 1 HETATM 18 N N6A NAI . . . D 3 -16.74 9.482 29.722 1 61.37 ? N6A NAI 500 A 1 HETATM 19 N N1A NAI . . . D 3 -17.569 8.109 28.004 1 60.52 ? N1A NAI 500 A 1 HETATM 20 C C2A NAI . . . D 3 -17.326 7.271 26.93 1 60.59 ? C2A NAI 500 A 1 HETATM 21 N N3A NAI . . . D 3 -16.031 7.061 26.499 1 60.39 ? N3A NAI 500 A 1 HETATM 22 C C4A NAI . . . D 3 -14.989 7.67 27.119 1 60.12 ? C4A NAI 500 A 1 HETATM 23 O O3 NAI . . . D 3 -7.653 6.403 25.25 1 48.04 ? O3 NAI 500 A 1 HETATM 24 P PN NAI . . . D 3 -6.688 5.457 24.371 1 45.39 ? PN NAI 500 A 1 HETATM 25 O O1N NAI . . . D 3 -7.331 4.147 24.152 1 46.22 ? O1N NAI 500 A 1 HETATM 26 O O2N NAI . . . D 3 -5.316 5.511 24.92 1 42.46 ? O2N NAI 500 A 1 HETATM 27 O O5D NAI . . . D 3 -6.71 6.255 22.978 1 50 ? O5D NAI 500 A 1 HETATM 28 C C5D NAI . . . D 3 -7.918 6.597 22.34 1 53.77 ? C5D NAI 500 A 1 HETATM 29 C C4D NAI . . . D 3 -7.622 6.95 20.889 1 57.44 ? C4D NAI 500 A 1 HETATM 30 O O4D NAI . . . D 3 -6.404 7.671 20.819 1 59.55 ? O4D NAI 500 A 1 HETATM 31 C C3D NAI . . . D 3 -7.474 5.711 20.012 1 59.39 ? C3D NAI 500 A 1 HETATM 32 O O3D NAI . . . D 3 -8.589 5.54 19.163 1 59.07 ? O3D NAI 500 A 1 HETATM 33 C C2D NAI . . . D 3 -6.203 5.934 19.214 1 60.28 ? C2D NAI 500 A 1 HETATM 34 O O2D NAI . . . D 3 -6.469 6.022 17.833 1 62.28 ? O2D NAI 500 A 1 HETATM 35 C C1D NAI . . . D 3 -5.613 7.244 19.725 1 60.82 ? C1D NAI 500 A 1 HETATM 36 N N1N NAI . . . D 3 -4.198 7.035 20.106 1 61.68 ? N1N NAI 500 A 1 HETATM 37 C C2N NAI . . . D 3 -3.21 7.644 19.374 1 62.22 ? C2N NAI 500 A 1 HETATM 38 C C3N NAI . . . D 3 -1.869 7.455 19.706 1 61.49 ? C3N NAI 500 A 1 HETATM 39 C C7N NAI . . . D 3 -0.802 8.078 18.844 1 61.23 ? C7N NAI 500 A 1 HETATM 40 O O7N NAI . . . D 3 -1.096 8.4 17.501 1 61.5 ? O7N NAI 500 A 1 HETATM 41 N N7N NAI . . . D 3 0.406 8.323 19.344 1 60.45 ? N7N NAI 500 A 1 HETATM 42 C C4N NAI . . . D 3 -1.546 6.635 20.788 1 60.51 ? C4N NAI 500 A 1 HETATM 43 C C5N NAI . . . D 3 -2.553 6.019 21.521 1 60.75 ? C5N NAI 500 A 1 HETATM 44 C C6N NAI . . . D 3 -3.881 6.228 21.169 1 61.47 ? C6N NAI 500 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 40 _model_server_stats.query_time_ms 604 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 44 #