data_5CPF # _model_server_result.job_id 6wBGBXwo6Gc4F9B6n1P86A _model_server_result.datetime_utc '2024-11-29 16:12:20' _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 5cpf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":300}' # _entry.id 5CPF # _exptl.entry_id 5CPF _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 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 5CPF _cell.length_a 92.01 _cell.length_b 97.556 _cell.length_c 184.711 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CPF _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 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,I,J,K,L _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 E N N ? 2 G N N ? 2 I N N ? 2 L 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 284 n n PA O2A NAD sing 285 n n PA O5B NAD sing 286 n n PA O3 NAD sing 287 n n O2A HOA2 NAD sing 288 n n O5B C5B NAD sing 289 n n C5B C4B NAD sing 290 n n C5B H51A NAD sing 291 n n C5B H52A NAD sing 292 n n C4B O4B NAD sing 293 n n C4B C3B NAD sing 294 n n C4B H4B NAD sing 295 n n O4B C1B NAD sing 296 n n C3B O3B NAD sing 297 n n C3B C2B NAD sing 298 n n C3B H3B NAD sing 299 n n O3B HO3A NAD sing 300 n n C2B O2B NAD sing 301 n n C2B C1B NAD sing 302 n n C2B H2B NAD sing 303 n n O2B HO2A NAD sing 304 n n C1B N9A NAD sing 305 n n C1B H1B NAD sing 306 n n N9A C8A NAD sing 307 n y N9A C4A NAD sing 308 n y C8A N7A NAD doub 309 n y C8A H8A NAD sing 310 n n N7A C5A NAD sing 311 n y C5A C6A NAD sing 312 n y C5A C4A NAD doub 313 n y C6A N6A NAD sing 314 n n C6A N1A NAD doub 315 n y N6A H61A NAD sing 316 n n N6A H62A NAD sing 317 n n N1A C2A NAD sing 318 n y C2A N3A NAD doub 319 n y C2A H2A NAD sing 320 n n N3A C4A NAD sing 321 n y O3 PN NAD sing 322 n n PN O1N NAD doub 323 n n PN O2N NAD sing 324 n n PN O5D NAD sing 325 n n O5D C5D NAD sing 326 n n C5D C4D NAD sing 327 n n C5D H51N NAD sing 328 n n C5D H52N NAD sing 329 n n C4D O4D NAD sing 330 n n C4D C3D NAD sing 331 n n C4D H4D NAD sing 332 n n O4D C1D NAD sing 333 n n C3D O3D NAD sing 334 n n C3D C2D NAD sing 335 n n C3D H3D NAD sing 336 n n O3D HO3N NAD sing 337 n n C2D O2D NAD sing 338 n n C2D C1D NAD sing 339 n n C2D H2D NAD sing 340 n n O2D HO2N NAD sing 341 n n C1D N1N NAD sing 342 n n C1D H1D NAD sing 343 n n N1N C2N NAD sing 344 n y N1N C6N NAD doub 345 n y C2N C3N NAD doub 346 n y C2N H2N NAD sing 347 n n C3N C7N NAD sing 348 n n C3N C4N NAD sing 349 n y C7N O7N NAD doub 350 n n C7N N7N NAD sing 351 n n N7N H71N NAD sing 352 n n N7N H72N NAD sing 353 n n C4N C5N NAD doub 354 n y C4N H4N NAD sing 355 n n C5N C6N NAD sing 356 n y C5N H5N NAD sing 357 n n C6N H6N NAD sing 358 n n # _atom_sites.entry_id 5CPF _atom_sites.fract_transf_matrix[1][1] 0.010868 _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] 0.010251 _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] 0.005414 _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 1 300 300 NAD NAD . F 3 53K A 1 301 301 53K LIG . G 2 NAD B 1 300 300 NAD NAD . H 3 53K B 1 301 301 53K LIG . I 2 NAD C 1 300 300 NAD NAD . J 3 53K C 1 301 301 53K LIG . K 3 53K D 1 301 301 53K LIG . L 2 NAD D 1 302 300 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 . . . G 2 26.157 -21.698 11.141 1 52.71 ? PA NAD 300 B 1 HETATM 2 O O1A NAD . . . G 2 26.909 -20.519 10.226 1 47.48 ? O1A NAD 300 B 1 HETATM 3 O O2A NAD . . . G 2 26.685 -23.057 10.891 1 51.78 ? O2A NAD 300 B 1 HETATM 4 O O5B NAD . . . G 2 26.274 -21.321 12.753 1 47.19 ? O5B NAD 300 B 1 HETATM 5 C C5B NAD . . . G 2 26.204 -22.427 13.639 1 51.2 ? C5B NAD 300 B 1 HETATM 6 C C4B NAD . . . G 2 27.49 -22.717 14.453 1 55.4 ? C4B NAD 300 B 1 HETATM 7 O O4B NAD . . . G 2 27.54 -24.066 15.059 1 58.01 ? O4B NAD 300 B 1 HETATM 8 C C3B NAD . . . G 2 28.879 -22.689 13.641 1 52.67 ? C3B NAD 300 B 1 HETATM 9 O O3B NAD . . . G 2 29.547 -21.457 13.595 1 52.42 ? O3B NAD 300 B 1 HETATM 10 C C2B NAD . . . G 2 29.664 -23.829 14.283 1 56.17 ? C2B NAD 300 B 1 HETATM 11 O O2B NAD . . . G 2 31.046 -23.603 14.409 1 58.94 ? O2B NAD 300 B 1 HETATM 12 C C1B NAD . . . G 2 28.855 -24.146 15.507 1 55.05 ? C1B NAD 300 B 1 HETATM 13 N N9A NAD . . . G 2 29.079 -25.545 15.964 1 56.63 ? N9A NAD 300 B 1 HETATM 14 C C8A NAD . . . G 2 28.834 -26.725 15.241 1 61.9 ? C8A NAD 300 B 1 HETATM 15 N N7A NAD . . . G 2 29.229 -27.851 16.06 1 56.99 ? N7A NAD 300 B 1 HETATM 16 C C5A NAD . . . G 2 29.708 -27.314 17.289 1 52.01 ? C5A NAD 300 B 1 HETATM 17 C C6A NAD . . . G 2 30.22 -27.944 18.459 1 55.94 ? C6A NAD 300 B 1 HETATM 18 N N6A NAD . . . G 2 30.314 -29.41 18.512 1 57.69 ? N6A NAD 300 B 1 HETATM 19 N N1A NAD . . . G 2 30.616 -27.187 19.496 1 57.32 ? N1A NAD 300 B 1 HETATM 20 C C2A NAD . . . G 2 30.527 -25.768 19.445 1 55.21 ? C2A NAD 300 B 1 HETATM 21 N N3A NAD . . . G 2 30.011 -25.143 18.286 1 50.59 ? N3A NAD 300 B 1 HETATM 22 C C4A NAD . . . G 2 29.621 -25.911 17.244 1 48.62 ? C4A NAD 300 B 1 HETATM 23 O O3 NAD . . . G 2 24.52 -21.662 10.847 1 51.25 ? O3 NAD 300 B 1 HETATM 24 P PN NAD . . . G 2 23.586 -20.553 11.65 1 46.89 ? PN NAD 300 B 1 HETATM 25 O O1N NAD . . . G 2 22.278 -20.28 10.705 1 51.91 ? O1N NAD 300 B 1 HETATM 26 O O2N NAD . . . G 2 24.306 -19.323 11.986 1 46.55 ? O2N NAD 300 B 1 HETATM 27 O O5D NAD . . . G 2 23 -21.21 13.052 1 52.6 ? O5D NAD 300 B 1 HETATM 28 C C5D NAD . . . G 2 22.555 -20.282 14.02 1 45.93 ? C5D NAD 300 B 1 HETATM 29 C C4D NAD . . . G 2 21.904 -20.911 15.26 1 46.93 ? C4D NAD 300 B 1 HETATM 30 O O4D NAD . . . G 2 20.507 -20.607 15.359 1 53.8 ? O4D NAD 300 B 1 HETATM 31 C C3D NAD . . . G 2 21.844 -22.479 15.426 1 48.31 ? C3D NAD 300 B 1 HETATM 32 O O3D NAD . . . G 2 21.722 -22.947 16.753 1 51.21 ? O3D NAD 300 B 1 HETATM 33 C C2D NAD . . . G 2 20.634 -22.831 14.52 1 48.26 ? C2D NAD 300 B 1 HETATM 34 O O2D NAD . . . G 2 20.075 -24.098 14.711 1 51.72 ? O2D NAD 300 B 1 HETATM 35 C C1D NAD . . . G 2 19.738 -21.697 14.911 1 51.68 ? C1D NAD 300 B 1 HETATM 36 N N1N NAD . . . G 2 18.855 -21.161 13.85 1 55.16 ? N1N NAD 300 B 1 HETATM 37 C C2N NAD . . . G 2 19.252 -21.019 12.445 1 48.04 ? C2N NAD 300 B 1 HETATM 38 C C3N NAD . . . G 2 18.295 -20.383 11.546 1 47.51 ? C3N NAD 300 B 1 HETATM 39 C C7N NAD . . . G 2 18.537 -20.156 10.036 1 51.67 ? C7N NAD 300 B 1 HETATM 40 O O7N NAD . . . G 2 17.65 -20.353 9.278 1 52.73 ? O7N NAD 300 B 1 HETATM 41 N N7N NAD . . . G 2 19.701 -19.408 9.572 1 51.59 ? N7N NAD 300 B 1 HETATM 42 C C4N NAD . . . G 2 16.985 -19.888 12.073 1 49.39 ? C4N NAD 300 B 1 HETATM 43 C C5N NAD . . . G 2 16.605 -20.02 13.46 1 45.24 ? C5N NAD 300 B 1 HETATM 44 C C6N NAD . . . G 2 17.547 -20.655 14.356 1 48.36 ? C6N NAD 300 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 44 #