data_2DPG # _model_server_result.job_id BiIZrm43_ve837hVqc_Lew _model_server_result.datetime_utc '2024-10-16 10:36:18' _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 2dpg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":799}' # _entry.id 2DPG # _exptl.entry_id 2DPG _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 1 _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 2DPG _cell.length_a 136.7 _cell.length_b 136.7 _cell.length_c 121.2 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2DPG _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 62 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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' 7_555 y,x,-z+2/3 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 80.8 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 224 n n PA O2A NAP sing 225 n n PA O5B NAP sing 226 n n PA O3 NAP sing 227 n n O2A HOA2 NAP sing 228 n n O5B C5B NAP sing 229 n n C5B C4B NAP sing 230 n n C5B H51A NAP sing 231 n n C5B H52A NAP sing 232 n n C4B O4B NAP sing 233 n n C4B C3B NAP sing 234 n n C4B H4B NAP sing 235 n n O4B C1B NAP sing 236 n n C3B O3B NAP sing 237 n n C3B C2B NAP sing 238 n n C3B H3B NAP sing 239 n n O3B HO3A NAP sing 240 n n C2B O2B NAP sing 241 n n C2B C1B NAP sing 242 n n C2B H2B NAP sing 243 n n O2B P2B NAP sing 244 n n C1B N9A NAP sing 245 n n C1B H1B NAP sing 246 n n N9A C8A NAP sing 247 n y N9A C4A NAP sing 248 n y C8A N7A NAP doub 249 n y C8A H8A NAP sing 250 n n N7A C5A NAP sing 251 n y C5A C6A NAP sing 252 n y C5A C4A NAP doub 253 n y C6A N6A NAP sing 254 n n C6A N1A NAP doub 255 n y N6A H61A NAP sing 256 n n N6A H62A NAP sing 257 n n N1A C2A NAP sing 258 n y C2A N3A NAP doub 259 n y C2A H2A NAP sing 260 n n N3A C4A NAP sing 261 n y O3 PN NAP sing 262 n n PN O1N NAP doub 263 n n PN O2N NAP sing 264 n n PN O5D NAP sing 265 n n O5D C5D NAP sing 266 n n C5D C4D NAP sing 267 n n C5D H51N NAP sing 268 n n C5D H52N NAP sing 269 n n C4D O4D NAP sing 270 n n C4D C3D NAP sing 271 n n C4D H4D NAP sing 272 n n O4D C1D NAP sing 273 n n C3D O3D NAP sing 274 n n C3D C2D NAP sing 275 n n C3D H3D NAP sing 276 n n O3D HO3N NAP sing 277 n n C2D O2D NAP sing 278 n n C2D C1D NAP sing 279 n n C2D H2D NAP sing 280 n n O2D HO2N NAP sing 281 n n C1D N1N NAP sing 282 n n C1D H1D NAP sing 283 n n N1N C2N NAP sing 284 n y N1N C6N NAP doub 285 n y C2N C3N NAP doub 286 n y C2N H2N NAP sing 287 n n C3N C7N NAP sing 288 n n C3N C4N NAP sing 289 n y C7N O7N NAP doub 290 n n C7N N7N NAP sing 291 n n N7N H71N NAP sing 292 n n N7N H72N NAP sing 293 n n C4N C5N NAP doub 294 n y C4N H4N NAP sing 295 n n C5N C6N NAP sing 296 n y C5N H5N NAP sing 297 n n C6N H6N NAP sing 298 n n P2B O1X NAP doub 299 n n P2B O2X NAP sing 300 n n P2B O3X NAP sing 301 n n O2X HOP2 NAP sing 302 n n O3X HOP3 NAP sing 303 n n # _atom_sites.entry_id 2DPG _atom_sites.fract_transf_matrix[1][1] 0.007315 _atom_sites.fract_transf_matrix[1][2] 0.004223 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008447 _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] 0.008251 _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 B 2 NAP A 1 799 799 NAP NAP . C 3 HOH A 1 1002 1002 HOH HOH . C 3 HOH A 2 1005 1005 HOH HOH . C 3 HOH A 3 1006 1006 HOH HOH . C 3 HOH A 4 1008 1008 HOH HOH . C 3 HOH A 5 1010 1010 HOH HOH . C 3 HOH A 6 1012 1012 HOH HOH . C 3 HOH A 7 1015 1015 HOH HOH . C 3 HOH A 8 1016 1016 HOH HOH . C 3 HOH A 9 1017 1017 HOH HOH . C 3 HOH A 10 1019 1019 HOH HOH . C 3 HOH A 11 1023 1023 HOH HOH . C 3 HOH A 12 1025 1025 HOH HOH . C 3 HOH A 13 1026 1026 HOH HOH . C 3 HOH A 14 1027 1027 HOH HOH . C 3 HOH A 15 1028 1028 HOH HOH . C 3 HOH A 16 1030 1030 HOH HOH . C 3 HOH A 17 1031 1031 HOH HOH . C 3 HOH A 18 1032 1032 HOH HOH . C 3 HOH A 19 1033 1033 HOH HOH . C 3 HOH A 20 1034 1034 HOH HOH . C 3 HOH A 21 1035 1035 HOH HOH . C 3 HOH A 22 1036 1036 HOH HOH . C 3 HOH A 23 1042 1042 HOH HOH . C 3 HOH A 24 1043 1043 HOH HOH . C 3 HOH A 25 1046 1046 HOH HOH . C 3 HOH A 26 1047 1047 HOH HOH . C 3 HOH A 27 1049 1049 HOH HOH . C 3 HOH A 28 1050 1050 HOH HOH . C 3 HOH A 29 1051 1051 HOH HOH . C 3 HOH A 30 1053 1053 HOH HOH . C 3 HOH A 31 1054 1054 HOH HOH . C 3 HOH A 32 1055 1055 HOH HOH . C 3 HOH A 33 1056 1056 HOH HOH . C 3 HOH A 34 1057 1057 HOH HOH . C 3 HOH A 35 1058 1058 HOH HOH . C 3 HOH A 36 1059 1059 HOH HOH . C 3 HOH A 37 1060 1060 HOH HOH . C 3 HOH A 38 1061 1061 HOH HOH . C 3 HOH A 39 1062 1062 HOH HOH . C 3 HOH A 40 1064 1064 HOH HOH . C 3 HOH A 41 1066 1066 HOH HOH . C 3 HOH A 42 1069 1069 HOH HOH . C 3 HOH A 43 1070 1070 HOH HOH . C 3 HOH A 44 1073 1073 HOH HOH . C 3 HOH A 45 1076 1076 HOH HOH . C 3 HOH A 46 1078 1078 HOH HOH . C 3 HOH A 47 1079 1079 HOH HOH . C 3 HOH A 48 1084 1084 HOH HOH . C 3 HOH A 49 1086 1086 HOH HOH . C 3 HOH A 50 1089 1089 HOH HOH . C 3 HOH A 51 1094 1094 HOH HOH . C 3 HOH A 52 1095 1095 HOH HOH . C 3 HOH A 53 1096 1096 HOH HOH . C 3 HOH A 54 1097 1097 HOH HOH . C 3 HOH A 55 1099 1099 HOH HOH . C 3 HOH A 56 1103 1103 HOH HOH . C 3 HOH A 57 1109 1109 HOH HOH . C 3 HOH A 58 1110 1110 HOH HOH . C 3 HOH A 59 1112 1112 HOH HOH . C 3 HOH A 60 1114 1114 HOH HOH . C 3 HOH A 61 1115 1115 HOH HOH . C 3 HOH A 62 1131 1131 HOH HOH . C 3 HOH A 63 1132 1132 HOH HOH . C 3 HOH A 64 1137 1137 HOH HOH . C 3 HOH A 65 1138 1138 HOH HOH . C 3 HOH A 66 1139 1139 HOH HOH . C 3 HOH A 67 1140 1140 HOH HOH . C 3 HOH A 68 1141 1141 HOH HOH . C 3 HOH A 69 1142 1142 HOH HOH . C 3 HOH A 70 1143 1143 HOH HOH . C 3 HOH A 71 1144 1144 HOH HOH . C 3 HOH A 72 1145 1145 HOH HOH . C 3 HOH A 73 1146 1146 HOH HOH . C 3 HOH A 74 1147 1147 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 . . . B 2 88.376 69.331 25.977 0.6 49.68 ? PA NAP 799 A 1 HETATM 2 O O1A NAP . . . B 2 87.912 69.642 24.606 0.6 49.5 ? O1A NAP 799 A 1 HETATM 3 O O2A NAP . . . B 2 89.115 70.494 26.528 0.6 46.17 ? O2A NAP 799 A 1 HETATM 4 O O5B NAP . . . B 2 89.188 67.957 26.064 0.6 46.19 ? O5B NAP 799 A 1 HETATM 5 C C5B NAP . . . B 2 88.517 66.781 26.567 0.6 40.36 ? C5B NAP 799 A 1 HETATM 6 C C4B NAP . . . B 2 89.175 66.323 27.842 0.6 35.23 ? C4B NAP 799 A 1 HETATM 7 O O4B NAP . . . B 2 89.466 64.916 27.681 0.6 32.93 ? O4B NAP 799 A 1 HETATM 8 C C3B NAP . . . B 2 90.502 66.997 28.186 0.6 33.66 ? C3B NAP 799 A 1 HETATM 9 O O3B NAP . . . B 2 90.693 67.246 29.594 0.6 31.17 ? O3B NAP 799 A 1 HETATM 10 C C2B NAP . . . B 2 91.495 65.991 27.637 0.6 33.38 ? C2B NAP 799 A 1 HETATM 11 O O2B NAP . . . B 2 92.751 66.054 28.305 0.6 33.3 ? O2B NAP 799 A 1 HETATM 12 C C1B NAP . . . B 2 90.821 64.674 27.889 0.6 31.81 ? C1B NAP 799 A 1 HETATM 13 N N9A NAP . . . B 2 91.307 63.601 27.031 0.6 31.64 ? N9A NAP 799 A 1 HETATM 14 C C8A NAP . . . B 2 91.238 63.484 25.642 0.6 31.55 ? C8A NAP 799 A 1 HETATM 15 N N7A NAP . . . B 2 91.758 62.342 25.19 0.6 32.71 ? N7A NAP 799 A 1 HETATM 16 C C5A NAP . . . B 2 92.158 61.749 26.318 0.6 31.16 ? C5A NAP 799 A 1 HETATM 17 C C6A NAP . . . B 2 92.774 60.5 26.384 0.6 31.97 ? C6A NAP 799 A 1 HETATM 18 N N6A NAP . . . B 2 93.046 59.756 25.32 0.6 32.65 ? N6A NAP 799 A 1 HETATM 19 N N1A NAP . . . B 2 93.116 60.044 27.623 0.6 33.32 ? N1A NAP 799 A 1 HETATM 20 C C2A NAP . . . B 2 92.826 60.837 28.718 0.6 33.11 ? C2A NAP 799 A 1 HETATM 21 N N3A NAP . . . B 2 92.243 62.033 28.766 0.6 31.39 ? N3A NAP 799 A 1 HETATM 22 C C4A NAP . . . B 2 91.925 62.434 27.483 0.6 30.7 ? C4A NAP 799 A 1 HETATM 23 O O3 NAP . . . B 2 87.085 68.988 26.945 0.6 47.45 ? O3 NAP 799 A 1 HETATM 24 P PN NAP . . . B 2 85.548 69.57 27.016 0.6 48.75 ? PN NAP 799 A 1 HETATM 25 O O1N NAP . . . B 2 85.159 70.135 25.703 0.6 47.28 ? O1N NAP 799 A 1 HETATM 26 O O2N NAP . . . B 2 85.483 70.635 28.047 0.6 47.14 ? O2N NAP 799 A 1 HETATM 27 O O5D NAP . . . B 2 84.728 68.256 27.411 0.6 45.88 ? O5D NAP 799 A 1 HETATM 28 P P2B NAP . . . B 2 94.043 65.945 27.383 0.6 30.98 ? P2B NAP 799 A 1 HETATM 29 O O1X NAP . . . B 2 93.715 66.707 26.16 0.6 31.82 ? O1X NAP 799 A 1 HETATM 30 O O2X NAP . . . B 2 94.206 64.496 27.161 0.6 25.73 ? O2X NAP 799 A 1 HETATM 31 O O3X NAP . . . B 2 95.121 66.549 28.215 0.6 27.29 ? O3X NAP 799 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 31 #