data_1WDL # _model_server_result.job_id LtnTGshHVPrXNw7389Baqw _model_server_result.datetime_utc '2024-10-28 12:20:49' _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 1wdl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":2001}' # _entry.id 1WDL # _exptl.entry_id 1WDL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 3 _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 90 _cell.entry_id 1WDL _cell.length_a 95.664 _cell.length_b 118.413 _cell.length_c 191.356 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1WDL _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 _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 E N N ? 3 I 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 387 n n PA O2A NAD sing 388 n n PA O5B NAD sing 389 n n PA O3 NAD sing 390 n n O2A HOA2 NAD sing 391 n n O5B C5B NAD sing 392 n n C5B C4B NAD sing 393 n n C5B H51A NAD sing 394 n n C5B H52A NAD sing 395 n n C4B O4B NAD sing 396 n n C4B C3B NAD sing 397 n n C4B H4B NAD sing 398 n n O4B C1B NAD sing 399 n n C3B O3B NAD sing 400 n n C3B C2B NAD sing 401 n n C3B H3B NAD sing 402 n n O3B HO3A NAD sing 403 n n C2B O2B NAD sing 404 n n C2B C1B NAD sing 405 n n C2B H2B NAD sing 406 n n O2B HO2A NAD sing 407 n n C1B N9A NAD sing 408 n n C1B H1B NAD sing 409 n n N9A C8A NAD sing 410 n y N9A C4A NAD sing 411 n y C8A N7A NAD doub 412 n y C8A H8A NAD sing 413 n n N7A C5A NAD sing 414 n y C5A C6A NAD sing 415 n y C5A C4A NAD doub 416 n y C6A N6A NAD sing 417 n n C6A N1A NAD doub 418 n y N6A H61A NAD sing 419 n n N6A H62A NAD sing 420 n n N1A C2A NAD sing 421 n y C2A N3A NAD doub 422 n y C2A H2A NAD sing 423 n n N3A C4A NAD sing 424 n y O3 PN NAD sing 425 n n PN O1N NAD doub 426 n n PN O2N NAD sing 427 n n PN O5D NAD sing 428 n n O5D C5D NAD sing 429 n n C5D C4D NAD sing 430 n n C5D H51N NAD sing 431 n n C5D H52N NAD sing 432 n n C4D O4D NAD sing 433 n n C4D C3D NAD sing 434 n n C4D H4D NAD sing 435 n n O4D C1D NAD sing 436 n n C3D O3D NAD sing 437 n n C3D C2D NAD sing 438 n n C3D H3D NAD sing 439 n n O3D HO3N NAD sing 440 n n C2D O2D NAD sing 441 n n C2D C1D NAD sing 442 n n C2D H2D NAD sing 443 n n O2D HO2N NAD sing 444 n n C1D N1N NAD sing 445 n n C1D H1D NAD sing 446 n n N1N C2N NAD sing 447 n y N1N C6N NAD doub 448 n y C2N C3N NAD doub 449 n y C2N H2N NAD sing 450 n n C3N C7N NAD sing 451 n n C3N C4N NAD sing 452 n y C7N O7N NAD doub 453 n n C7N N7N NAD sing 454 n n N7N H71N NAD sing 455 n n N7N H72N NAD sing 456 n n C4N C5N NAD doub 457 n y C4N H4N NAD sing 458 n n C5N C6N NAD sing 459 n y C5N H5N NAD sing 460 n n C6N H6N NAD sing 461 n n # _atom_sites.entry_id 1WDL _atom_sites.fract_transf_matrix[1][1] 0.010453 _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] 0.008445 _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] 0.005226 _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 3 NAD A 1 1001 1001 NAD NAD . F 4 N8E A 1 1002 1002 N8E C8E . G 4 N8E A 1 1003 1003 N8E C8E . H 4 N8E A 1 1004 1004 N8E C8E . I 3 NAD B 1 2001 1001 NAD NAD . J 5 ACO C 1 3001 1001 ACO ACC . K 5 ACO D 1 4001 1001 ACO ACC . # 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 . . . I 3 22.666 90.395 12.806 1 78.26 ? PA NAD 2001 B 1 HETATM 2 O O1A NAD . . . I 3 22.531 88.953 12.468 1 78.26 ? O1A NAD 2001 B 1 HETATM 3 O O2A NAD . . . I 3 21.58 91.281 12.313 1 78.26 ? O2A NAD 2001 B 1 HETATM 4 O O5B NAD . . . I 3 22.707 90.549 14.396 1 78.26 ? O5B NAD 2001 B 1 HETATM 5 C C5B NAD . . . I 3 22.914 91.815 15.032 1 78.26 ? C5B NAD 2001 B 1 HETATM 6 C C4B NAD . . . I 3 23.395 91.589 16.451 1 43.39 ? C4B NAD 2001 B 1 HETATM 7 O O4B NAD . . . I 3 24.066 92.797 16.929 1 43.39 ? O4B NAD 2001 B 1 HETATM 8 C C3B NAD . . . I 3 22.248 91.346 17.442 1 43.39 ? C3B NAD 2001 B 1 HETATM 9 O O3B NAD . . . I 3 22.594 90.339 18.39 1 43.39 ? O3B NAD 2001 B 1 HETATM 10 C C2B NAD . . . I 3 22.063 92.708 18.116 1 43.39 ? C2B NAD 2001 B 1 HETATM 11 O O2B NAD . . . I 3 21.503 92.622 19.412 1 43.39 ? O2B NAD 2001 B 1 HETATM 12 C C1B NAD . . . I 3 23.511 93.189 18.172 1 43.39 ? C1B NAD 2001 B 1 HETATM 13 N N9A NAD . . . I 3 23.623 94.654 18.312 1 46.49 ? N9A NAD 2001 B 1 HETATM 14 C C8A NAD . . . I 3 23.091 95.644 17.507 1 46.49 ? C8A NAD 2001 B 1 HETATM 15 N N7A NAD . . . I 3 23.375 96.866 17.904 1 46.49 ? N7A NAD 2001 B 1 HETATM 16 C C5A NAD . . . I 3 24.14 96.677 19.046 1 46.49 ? C5A NAD 2001 B 1 HETATM 17 C C6A NAD . . . I 3 24.774 97.578 19.955 1 46.49 ? C6A NAD 2001 B 1 HETATM 18 N N6A NAD . . . I 3 24.708 98.907 19.839 1 46.49 ? N6A NAD 2001 B 1 HETATM 19 N N1A NAD . . . I 3 25.48 97.05 21.013 1 46.49 ? N1A NAD 2001 B 1 HETATM 20 C C2A NAD . . . I 3 25.558 95.701 21.147 1 46.49 ? C2A NAD 2001 B 1 HETATM 21 N N3A NAD . . . I 3 25.006 94.757 20.354 1 46.49 ? N3A NAD 2001 B 1 HETATM 22 C C4A NAD . . . I 3 24.311 95.314 19.309 1 46.49 ? C4A NAD 2001 B 1 HETATM 23 O O3 NAD . . . I 3 24.047 90.915 12.187 1 78.26 ? O3 NAD 2001 B 1 HETATM 24 P PN NAD . . . I 3 25.355 89.993 12.188 1 78.26 ? PN NAD 2001 B 1 HETATM 25 O O1N NAD . . . I 3 25.39 89.197 13.442 1 78.26 ? O1N NAD 2001 B 1 HETATM 26 O O2N NAD . . . I 3 25.329 89.21 10.924 1 78.26 ? O2N NAD 2001 B 1 HETATM 27 O O5D NAD . . . I 3 26.654 90.922 12.179 1 78.26 ? O5D NAD 2001 B 1 HETATM 28 C C5D NAD . . . I 3 26.945 91.785 11.08 1 78.26 ? C5D NAD 2001 B 1 HETATM 29 C C4D NAD . . . I 3 28.441 91.984 10.958 1 56.15 ? C4D NAD 2001 B 1 HETATM 30 O O4D NAD . . . I 3 29.015 90.788 10.346 1 56.15 ? O4D NAD 2001 B 1 HETATM 31 C C3D NAD . . . I 3 28.811 93.132 10.013 1 56.15 ? C3D NAD 2001 B 1 HETATM 32 O O3D NAD . . . I 3 29.952 93.842 10.493 1 56.15 ? O3D NAD 2001 B 1 HETATM 33 C C2D NAD . . . I 3 29.107 92.422 8.69 1 56.15 ? C2D NAD 2001 B 1 HETATM 34 O O2D NAD . . . I 3 29.99 93.144 7.855 1 56.15 ? O2D NAD 2001 B 1 HETATM 35 C C1D NAD . . . I 3 29.757 91.131 9.188 1 56.15 ? C1D NAD 2001 B 1 HETATM 36 N N1N NAD . . . I 3 29.745 90.082 8.134 1 93.95 ? N1N NAD 2001 B 1 HETATM 37 C C2N NAD . . . I 3 28.578 89.374 7.861 1 93.95 ? C2N NAD 2001 B 1 HETATM 38 C C3N NAD . . . I 3 28.565 88.393 6.876 1 93.95 ? C3N NAD 2001 B 1 HETATM 39 C C7N NAD . . . I 3 27.252 87.576 6.547 1 93.95 ? C7N NAD 2001 B 1 HETATM 40 O O7N NAD . . . I 3 27.065 86.484 7.059 1 93.95 ? O7N NAD 2001 B 1 HETATM 41 N N7N NAD . . . I 3 26.389 88.164 5.689 1 93.95 ? N7N NAD 2001 B 1 HETATM 42 C C4N NAD . . . I 3 29.741 88.073 6.109 1 93.95 ? C4N NAD 2001 B 1 HETATM 43 C C5N NAD . . . I 3 30.876 88.846 6.458 1 93.95 ? C5N NAD 2001 B 1 HETATM 44 C C6N NAD . . . I 3 30.958 89.832 7.421 1 93.95 ? C6N NAD 2001 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 234 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 44 #