data_1DIB # _model_server_result.job_id dYBGL2Ls-1MgqpDIcmFn-g _model_server_result.datetime_utc '2024-11-27 03:11:13' _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 1dib # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":2001}' # _entry.id 1DIB # _exptl.entry_id 1DIB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 1DIB _cell.length_a 67.49 _cell.length_b 136.37 _cell.length_c 61.38 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DIB _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 ? 2 C N N ? 2 E N N # _chem_comp.formula 'C21 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # 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 NAP doub 295 n n PA O2A NAP sing 296 n n PA O5B NAP sing 297 n n PA O3 NAP sing 298 n n O2A HOA2 NAP sing 299 n n O5B C5B NAP sing 300 n n C5B C4B NAP sing 301 n n C5B H51A NAP sing 302 n n C5B H52A NAP sing 303 n n C4B O4B NAP sing 304 n n C4B C3B NAP sing 305 n n C4B H4B NAP sing 306 n n O4B C1B NAP sing 307 n n C3B O3B NAP sing 308 n n C3B C2B NAP sing 309 n n C3B H3B NAP sing 310 n n O3B HO3A NAP sing 311 n n C2B O2B NAP sing 312 n n C2B C1B NAP sing 313 n n C2B H2B NAP sing 314 n n O2B P2B NAP sing 315 n n C1B N9A NAP sing 316 n n C1B H1B NAP sing 317 n n N9A C8A NAP sing 318 n y N9A C4A NAP sing 319 n y C8A N7A NAP doub 320 n y C8A H8A NAP sing 321 n n N7A C5A NAP sing 322 n y C5A C6A NAP sing 323 n y C5A C4A NAP doub 324 n y C6A N6A NAP sing 325 n n C6A N1A NAP doub 326 n y N6A H61A NAP sing 327 n n N6A H62A NAP sing 328 n n N1A C2A NAP sing 329 n y C2A N3A NAP doub 330 n y C2A H2A NAP sing 331 n n N3A C4A NAP sing 332 n y O3 PN NAP sing 333 n n PN O1N NAP doub 334 n n PN O2N NAP sing 335 n n PN O5D NAP sing 336 n n O5D C5D NAP sing 337 n n C5D C4D NAP sing 338 n n C5D H51N NAP sing 339 n n C5D H52N NAP sing 340 n n C4D O4D NAP sing 341 n n C4D C3D NAP sing 342 n n C4D H4D NAP sing 343 n n O4D C1D NAP sing 344 n n C3D O3D NAP sing 345 n n C3D C2D NAP sing 346 n n C3D H3D NAP sing 347 n n O3D HO3N NAP sing 348 n n C2D O2D NAP sing 349 n n C2D C1D NAP sing 350 n n C2D H2D NAP sing 351 n n O2D HO2N NAP sing 352 n n C1D N1N NAP sing 353 n n C1D H1D NAP sing 354 n n N1N C2N NAP sing 355 n y N1N C6N NAP doub 356 n y C2N C3N NAP doub 357 n y C2N H2N NAP sing 358 n n C3N C7N NAP sing 359 n n C3N C4N NAP sing 360 n y C7N O7N NAP doub 361 n n C7N N7N NAP sing 362 n n N7N H71N NAP sing 363 n n N7N H72N NAP sing 364 n n C4N C5N NAP doub 365 n y C4N H4N NAP sing 366 n n C5N C6N NAP sing 367 n y C5N H5N NAP sing 368 n n C6N H6N NAP sing 369 n n P2B O1X NAP doub 370 n n P2B O2X NAP sing 371 n n P2B O3X NAP sing 372 n n O2X HOP2 NAP sing 373 n n O3X HOP3 NAP sing 374 n n # _atom_sites.entry_id 1DIB _atom_sites.fract_transf_matrix[1][1] 0.014817 _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] 0.007333 _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] 0.016292 _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 NAP A 1 2001 2001 NAP NAP . D 3 L34 A 1 3001 3001 L34 L34 . E 2 NAP B 1 2002 2002 NAP NAP . F 4 HOH A 1 4001 4001 HOH HOH . F 4 HOH A 2 4002 4002 HOH HOH . F 4 HOH A 3 4003 4003 HOH HOH . F 4 HOH A 4 4004 4004 HOH HOH . F 4 HOH A 5 4005 4005 HOH HOH . F 4 HOH A 6 4006 4006 HOH HOH . F 4 HOH A 7 4007 4007 HOH HOH . F 4 HOH A 8 4008 4008 HOH HOH . F 4 HOH A 9 4018 4018 HOH HOH . F 4 HOH A 10 4019 4019 HOH HOH . F 4 HOH A 11 4020 4020 HOH HOH . F 4 HOH A 12 4021 4021 HOH HOH . F 4 HOH A 13 4023 4023 HOH HOH . F 4 HOH A 14 4026 4026 HOH HOH . F 4 HOH A 15 4027 4027 HOH HOH . F 4 HOH A 16 4028 4028 HOH HOH . F 4 HOH A 17 4031 4031 HOH HOH . F 4 HOH A 18 4033 4033 HOH HOH . F 4 HOH A 19 4035 4035 HOH HOH . F 4 HOH A 20 4036 4036 HOH HOH . F 4 HOH A 21 4037 4037 HOH HOH . F 4 HOH A 22 4038 4038 HOH HOH . F 4 HOH A 23 4039 4039 HOH HOH . F 4 HOH A 24 4040 4040 HOH HOH . F 4 HOH A 25 4041 4041 HOH HOH . F 4 HOH A 26 4049 4049 HOH HOH . F 4 HOH A 27 4050 4050 HOH HOH . F 4 HOH A 28 4051 4051 HOH HOH . F 4 HOH A 29 4052 4052 HOH HOH . F 4 HOH A 30 4053 4053 HOH HOH . F 4 HOH A 31 4056 4056 HOH HOH . F 4 HOH A 32 4058 4058 HOH HOH . F 4 HOH A 33 4059 4059 HOH HOH . F 4 HOH A 34 4073 4073 HOH HOH . F 4 HOH A 35 4074 4074 HOH HOH . F 4 HOH A 36 4075 4075 HOH HOH . F 4 HOH A 37 4076 4076 HOH HOH . F 4 HOH A 38 4077 4077 HOH HOH . F 4 HOH A 39 4078 4078 HOH HOH . F 4 HOH A 40 4079 4079 HOH HOH . F 4 HOH A 41 4080 4080 HOH HOH . F 4 HOH A 42 4081 4081 HOH HOH . F 4 HOH A 43 4082 4082 HOH HOH . F 4 HOH A 44 4083 4083 HOH HOH . F 4 HOH A 45 4086 4086 HOH HOH . F 4 HOH A 46 4088 4088 HOH HOH . F 4 HOH A 47 4090 4090 HOH HOH . F 4 HOH A 48 4099 4099 HOH HOH . F 4 HOH A 49 4100 4100 HOH HOH . F 4 HOH A 50 4101 4101 HOH HOH . F 4 HOH A 51 4103 4103 HOH HOH . F 4 HOH A 52 4107 4107 HOH HOH . G 4 HOH B 1 4009 4009 HOH HOH . G 4 HOH B 2 4010 4010 HOH HOH . G 4 HOH B 3 4011 4011 HOH HOH . G 4 HOH B 4 4012 4012 HOH HOH . G 4 HOH B 5 4013 4013 HOH HOH . G 4 HOH B 6 4014 4014 HOH HOH . G 4 HOH B 7 4015 4015 HOH HOH . G 4 HOH B 8 4016 4016 HOH HOH . G 4 HOH B 9 4017 4017 HOH HOH . G 4 HOH B 10 4022 4022 HOH HOH . G 4 HOH B 11 4024 4024 HOH HOH . G 4 HOH B 12 4025 4025 HOH HOH . G 4 HOH B 13 4029 4029 HOH HOH . G 4 HOH B 14 4030 4030 HOH HOH . G 4 HOH B 15 4032 4032 HOH HOH . G 4 HOH B 16 4034 4034 HOH HOH . G 4 HOH B 17 4042 4042 HOH HOH . G 4 HOH B 18 4043 4043 HOH HOH . G 4 HOH B 19 4044 4044 HOH HOH . G 4 HOH B 20 4045 4045 HOH HOH . G 4 HOH B 21 4046 4046 HOH HOH . G 4 HOH B 22 4047 4047 HOH HOH . G 4 HOH B 23 4048 4048 HOH HOH . G 4 HOH B 24 4054 4054 HOH HOH . G 4 HOH B 25 4055 4055 HOH HOH . G 4 HOH B 26 4057 4057 HOH HOH . G 4 HOH B 27 4060 4060 HOH HOH . G 4 HOH B 28 4061 4061 HOH HOH . G 4 HOH B 29 4062 4062 HOH HOH . G 4 HOH B 30 4063 4063 HOH HOH . G 4 HOH B 31 4064 4064 HOH HOH . G 4 HOH B 32 4065 4065 HOH HOH . G 4 HOH B 33 4066 4066 HOH HOH . G 4 HOH B 34 4067 4067 HOH HOH . G 4 HOH B 35 4068 4068 HOH HOH . G 4 HOH B 36 4069 4069 HOH HOH . G 4 HOH B 37 4070 4070 HOH HOH . G 4 HOH B 38 4071 4071 HOH HOH . G 4 HOH B 39 4072 4072 HOH HOH . G 4 HOH B 40 4084 4084 HOH HOH . G 4 HOH B 41 4085 4085 HOH HOH . G 4 HOH B 42 4087 4087 HOH HOH . G 4 HOH B 43 4089 4089 HOH HOH . G 4 HOH B 44 4091 4091 HOH HOH . G 4 HOH B 45 4092 4092 HOH HOH . G 4 HOH B 46 4093 4093 HOH HOH . G 4 HOH B 47 4094 4094 HOH HOH . G 4 HOH B 48 4095 4095 HOH HOH . G 4 HOH B 49 4096 4096 HOH HOH . G 4 HOH B 50 4097 4097 HOH HOH . G 4 HOH B 51 4098 4098 HOH HOH . G 4 HOH B 52 4102 4102 HOH HOH . G 4 HOH B 53 4104 4104 HOH HOH . G 4 HOH B 54 4105 4105 HOH HOH . G 4 HOH B 55 4106 4106 HOH HOH . G 4 HOH B 56 4108 4108 HOH HOH . G 4 HOH B 57 4109 4109 HOH HOH . G 4 HOH B 58 4110 4110 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 NAP . . . C 2 -5.903 47.656 25.522 0.25 36.85 ? PA NAP 2001 A 1 HETATM 2 O O1A NAP . . . C 2 -7.162 48.395 25.789 0.25 37.22 ? O1A NAP 2001 A 1 HETATM 3 O O2A NAP . . . C 2 -5.963 46.905 24.248 0.25 36.67 ? O2A NAP 2001 A 1 HETATM 4 O O5B NAP . . . C 2 -5.577 46.658 26.716 0.25 36.43 ? O5B NAP 2001 A 1 HETATM 5 C C5B NAP . . . C 2 -5.685 47.038 28.102 0.25 33.15 ? C5B NAP 2001 A 1 HETATM 6 C C4B NAP . . . C 2 -5.058 45.942 28.996 0.25 31.78 ? C4B NAP 2001 A 1 HETATM 7 O O4B NAP . . . C 2 -5.099 46.323 30.37 0.25 34.16 ? O4B NAP 2001 A 1 HETATM 8 C C3B NAP . . . C 2 -5.792 44.622 28.881 0.25 30.6 ? C3B NAP 2001 A 1 HETATM 9 O O3B NAP . . . C 2 -4.84 43.573 28.92 0.25 28.76 ? O3B NAP 2001 A 1 HETATM 10 C C2B NAP . . . C 2 -6.669 44.552 30.126 0.25 29.88 ? C2B NAP 2001 A 1 HETATM 11 O O2B NAP . . . C 2 -6.75 43.199 30.573 0.25 34.07 ? O2B NAP 2001 A 1 HETATM 12 C C1B NAP . . . C 2 -5.902 45.419 31.137 0.25 27.37 ? C1B NAP 2001 A 1 HETATM 13 N N9A NAP . . . C 2 -6.798 46.134 32.04 0.4 21.5 ? N9A NAP 2001 A 1 HETATM 14 C C8A NAP . . . C 2 -8.006 46.883 31.686 0.4 18.55 ? C8A NAP 2001 A 1 HETATM 15 N N7A NAP . . . C 2 -8.52 47.383 32.89 0.4 16.38 ? N7A NAP 2001 A 1 HETATM 16 C C5A NAP . . . C 2 -7.677 46.962 33.865 0.4 15.79 ? C5A NAP 2001 A 1 HETATM 17 C C6A NAP . . . C 2 -7.804 47.233 35.212 0.4 14.23 ? C6A NAP 2001 A 1 HETATM 18 N N6A NAP . . . C 2 -8.809 47.976 35.685 0.4 13.68 ? N6A NAP 2001 A 1 HETATM 19 N N1A NAP . . . C 2 -6.799 46.699 36.119 0.4 13.97 ? N1A NAP 2001 A 1 HETATM 20 C C2A NAP . . . C 2 -5.772 45.962 35.646 0.4 14.21 ? C2A NAP 2001 A 1 HETATM 21 N N3A NAP . . . C 2 -5.688 45.724 34.32 0.4 15.58 ? N3A NAP 2001 A 1 HETATM 22 C C4A NAP . . . C 2 -6.707 46.269 33.442 0.4 17.66 ? C4A NAP 2001 A 1 HETATM 23 O O3 NAP . . . C 2 -4.665 48.656 25.515 0.25 42.1 ? O3 NAP 2001 A 1 HETATM 24 P PN NAP . . . C 2 -3.244 48.767 24.783 0.25 37.15 ? PN NAP 2001 A 1 HETATM 25 O O1N NAP . . . C 2 -3.369 48.607 23.3 0.25 37.7 ? O1N NAP 2001 A 1 HETATM 26 O O2N NAP . . . C 2 -2.222 47.857 25.369 0.25 37.21 ? O2N NAP 2001 A 1 HETATM 27 O O5D NAP . . . C 2 -2.793 50.256 25.12 0.1 36.18 ? O5D NAP 2001 A 1 HETATM 28 C C5D NAP . . . C 2 -2.746 50.713 26.475 0.1 32.1 ? C5D NAP 2001 A 1 HETATM 29 C C4D NAP . . . C 2 -1.852 51.939 26.58 0.1 29.69 ? C4D NAP 2001 A 1 HETATM 30 O O4D NAP . . . C 2 -0.681 51.776 25.789 0.1 29.32 ? O4D NAP 2001 A 1 HETATM 31 C C3D NAP . . . C 2 -2.613 53.122 25.965 0.1 28.56 ? C3D NAP 2001 A 1 HETATM 32 O O3D NAP . . . C 2 -2.36 54.278 26.762 0.1 28.63 ? O3D NAP 2001 A 1 HETATM 33 C C2D NAP . . . C 2 -1.991 53.323 24.572 0.1 27.52 ? C2D NAP 2001 A 1 HETATM 34 O O2D NAP . . . C 2 -1.99 54.705 24.221 0.1 27.46 ? O2D NAP 2001 A 1 HETATM 35 C C1D NAP . . . C 2 -0.603 52.91 24.956 0.1 26.53 ? C1D NAP 2001 A 1 HETATM 36 N N1N NAP . . . C 2 0.341 52.875 23.861 0.1 24.34 ? N1N NAP 2001 A 1 HETATM 37 C C2N NAP . . . C 2 1.276 53.841 23.875 0.1 22.56 ? C2N NAP 2001 A 1 HETATM 38 C C3N NAP . . . C 2 1.972 54.183 22.761 0.1 21.14 ? C3N NAP 2001 A 1 HETATM 39 C C7N NAP . . . C 2 2.651 55.544 22.729 0.1 20.33 ? C7N NAP 2001 A 1 HETATM 40 O O7N NAP . . . C 2 2.86 56.175 21.673 0.1 19.67 ? O7N NAP 2001 A 1 HETATM 41 N N7N NAP . . . C 2 2.847 56.095 23.925 0.1 19.71 ? N7N NAP 2001 A 1 HETATM 42 C C4N NAP . . . C 2 1.712 53.406 21.507 0.1 21.54 ? C4N NAP 2001 A 1 HETATM 43 C C5N NAP . . . C 2 0.768 52.393 21.56 0.1 22.19 ? C5N NAP 2001 A 1 HETATM 44 C C6N NAP . . . C 2 0.089 52.146 22.753 0.1 23.12 ? C6N NAP 2001 A 1 HETATM 45 P P2B NAP . . . C 2 -7.588 42.097 29.796 0.25 29.36 ? P2B NAP 2001 A 1 HETATM 46 O O1X NAP . . . C 2 -8.739 42.723 29.111 0.25 29.89 ? O1X NAP 2001 A 1 HETATM 47 O O2X NAP . . . C 2 -6.698 41.445 28.812 0.25 30.03 ? O2X NAP 2001 A 1 HETATM 48 O O3X NAP . . . C 2 -8.069 41.09 30.77 0.25 29.8 ? O3X NAP 2001 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 48 #