data_8OQ2 # _model_server_result.job_id 5Jczel1slDXKXvndEctGvQ _model_server_result.datetime_utc '2024-11-14 20:40:01' _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 8oq2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":401}' # _entry.id 8OQ2 # _exptl.entry_id 8OQ2 _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 6 _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 8OQ2 _cell.length_a 132.265 _cell.length_b 132.265 _cell.length_c 302.952 _cell.Z_PDB 36 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8OQ2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 software_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,H,I,J,K,L,M,N,O,AA,BA 1 1 C,F,P,Q,R,S,T,U,V,W,Z,CA,FA 2 1 D,X,DA 3 1 E,Y,EA 3 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' 5_664 y+1,-x+y+1,z-1/6 0.5 0.866025 0 -0.866025 0.5 0 0 0 1 66.1325 114.54485 -50.492 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 G N N ? 2 H N N ? 2 P N N ? 2 X N N ? 2 Y N N ? 2 Z 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 239 n n PA O2A NAP sing 240 n n PA O5B NAP sing 241 n n PA O3 NAP sing 242 n n O2A HOA2 NAP sing 243 n n O5B C5B NAP sing 244 n n C5B C4B NAP sing 245 n n C5B H51A NAP sing 246 n n C5B H52A NAP sing 247 n n C4B O4B NAP sing 248 n n C4B C3B NAP sing 249 n n C4B H4B NAP sing 250 n n O4B C1B NAP sing 251 n n C3B O3B NAP sing 252 n n C3B C2B NAP sing 253 n n C3B H3B NAP sing 254 n n O3B HO3A NAP sing 255 n n C2B O2B NAP sing 256 n n C2B C1B NAP sing 257 n n C2B H2B NAP sing 258 n n O2B P2B NAP sing 259 n n C1B N9A NAP sing 260 n n C1B H1B NAP sing 261 n n N9A C8A NAP sing 262 n y N9A C4A NAP sing 263 n y C8A N7A NAP doub 264 n y C8A H8A NAP sing 265 n n N7A C5A NAP sing 266 n y C5A C6A NAP sing 267 n y C5A C4A NAP doub 268 n y C6A N6A NAP sing 269 n n C6A N1A NAP doub 270 n y N6A H61A NAP sing 271 n n N6A H62A NAP sing 272 n n N1A C2A NAP sing 273 n y C2A N3A NAP doub 274 n y C2A H2A NAP sing 275 n n N3A C4A NAP sing 276 n y O3 PN NAP sing 277 n n PN O1N NAP doub 278 n n PN O2N NAP sing 279 n n PN O5D NAP sing 280 n n O5D C5D NAP sing 281 n n C5D C4D NAP sing 282 n n C5D H51N NAP sing 283 n n C5D H52N NAP sing 284 n n C4D O4D NAP sing 285 n n C4D C3D NAP sing 286 n n C4D H4D NAP sing 287 n n O4D C1D NAP sing 288 n n C3D O3D NAP sing 289 n n C3D C2D NAP sing 290 n n C3D H3D NAP sing 291 n n O3D HO3N NAP sing 292 n n C2D O2D NAP sing 293 n n C2D C1D NAP sing 294 n n C2D H2D NAP sing 295 n n O2D HO2N NAP sing 296 n n C1D N1N NAP sing 297 n n C1D H1D NAP sing 298 n n N1N C2N NAP sing 299 n y N1N C6N NAP doub 300 n y C2N C3N NAP doub 301 n y C2N H2N NAP sing 302 n n C3N C7N NAP sing 303 n n C3N C4N NAP sing 304 n y C7N O7N NAP doub 305 n n C7N N7N NAP sing 306 n n N7N H71N NAP sing 307 n n N7N H72N NAP sing 308 n n C4N C5N NAP doub 309 n y C4N H4N NAP sing 310 n n C5N C6N NAP sing 311 n y C5N H5N NAP sing 312 n n C6N H6N NAP sing 313 n n P2B O1X NAP doub 314 n n P2B O2X NAP sing 315 n n P2B O3X NAP sing 316 n n O2X HOP2 NAP sing 317 n n O3X HOP3 NAP sing 318 n n # _atom_sites.entry_id 8OQ2 _atom_sites.fract_transf_matrix[1][1] 0.007561 _atom_sites.fract_transf_matrix[1][2] 0.004365 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00873 _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] 0.003301 _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 G 2 NAP A 1 401 402 NAP NAP . H 2 NAP B 1 401 401 NAP NAP . I 3 AZI B 1 402 402 AZI AZI . J 3 AZI B 1 403 403 AZI AZI . K 3 AZI B 1 404 404 AZI AZI . L 3 AZI B 1 405 405 AZI AZI . M 3 AZI B 1 406 406 AZI AZI . N 3 AZI B 1 407 407 AZI AZI . O 3 AZI B 1 408 408 AZI AZI . P 2 NAP C 1 401 401 NAP NAP . Q 3 AZI C 1 402 402 AZI AZI . R 3 AZI C 1 403 403 AZI AZI . S 3 AZI C 1 404 404 AZI AZI . T 3 AZI C 1 405 405 AZI AZI . U 3 AZI C 1 406 406 AZI AZI . V 3 AZI C 1 407 409 AZI AZI . W 3 AZI C 1 408 410 AZI AZI . X 2 NAP D 1 401 401 NAP NAP . Y 2 NAP E 1 401 402 NAP NAP . Z 2 NAP F 1 401 402 NAP NAP . AA 4 HOH A 1 501 84 HOH HOH . AA 4 HOH A 2 502 87 HOH HOH . AA 4 HOH A 3 503 93 HOH HOH . AA 4 HOH A 4 504 101 HOH HOH . AA 4 HOH A 5 505 127 HOH HOH . AA 4 HOH A 6 506 43 HOH HOH . AA 4 HOH A 7 507 48 HOH HOH . AA 4 HOH A 8 508 72 HOH HOH . AA 4 HOH A 9 509 42 HOH HOH . AA 4 HOH A 10 510 157 HOH HOH . AA 4 HOH A 11 511 71 HOH HOH . AA 4 HOH A 12 512 64 HOH HOH . AA 4 HOH A 13 513 124 HOH HOH . AA 4 HOH A 14 514 85 HOH HOH . AA 4 HOH A 15 515 61 HOH HOH . AA 4 HOH A 16 516 67 HOH HOH . AA 4 HOH A 17 517 10 HOH HOH . AA 4 HOH A 18 518 98 HOH HOH . AA 4 HOH A 19 519 83 HOH HOH . AA 4 HOH A 20 520 86 HOH HOH . AA 4 HOH A 21 521 106 HOH HOH . AA 4 HOH A 22 522 59 HOH HOH . AA 4 HOH A 23 523 39 HOH HOH . AA 4 HOH A 24 524 33 HOH HOH . AA 4 HOH A 25 525 68 HOH HOH . AA 4 HOH A 26 526 50 HOH HOH . AA 4 HOH A 27 527 37 HOH HOH . AA 4 HOH A 28 528 21 HOH HOH . AA 4 HOH A 29 529 75 HOH HOH . AA 4 HOH A 30 530 12 HOH HOH . AA 4 HOH A 31 531 176 HOH HOH . AA 4 HOH A 32 532 149 HOH HOH . AA 4 HOH A 33 533 146 HOH HOH . AA 4 HOH A 34 534 155 HOH HOH . AA 4 HOH A 35 535 147 HOH HOH . AA 4 HOH A 36 536 156 HOH HOH . BA 4 HOH B 1 501 141 HOH HOH . BA 4 HOH B 2 502 113 HOH HOH . BA 4 HOH B 3 503 132 HOH HOH . BA 4 HOH B 4 504 90 HOH HOH . BA 4 HOH B 5 505 77 HOH HOH . BA 4 HOH B 6 506 143 HOH HOH . BA 4 HOH B 7 507 57 HOH HOH . BA 4 HOH B 8 508 34 HOH HOH . BA 4 HOH B 9 509 91 HOH HOH . BA 4 HOH B 10 510 154 HOH HOH . BA 4 HOH B 11 511 56 HOH HOH . BA 4 HOH B 12 512 100 HOH HOH . BA 4 HOH B 13 513 63 HOH HOH . BA 4 HOH B 14 514 114 HOH HOH . BA 4 HOH B 15 515 62 HOH HOH . BA 4 HOH B 16 516 105 HOH HOH . BA 4 HOH B 17 517 14 HOH HOH . BA 4 HOH B 18 518 119 HOH HOH . BA 4 HOH B 19 519 134 HOH HOH . BA 4 HOH B 20 520 70 HOH HOH . BA 4 HOH B 21 521 46 HOH HOH . BA 4 HOH B 22 522 153 HOH HOH . BA 4 HOH B 23 523 163 HOH HOH . BA 4 HOH B 24 524 94 HOH HOH . BA 4 HOH B 25 525 31 HOH HOH . BA 4 HOH B 26 526 150 HOH HOH . BA 4 HOH B 27 527 160 HOH HOH . BA 4 HOH B 28 528 148 HOH HOH . BA 4 HOH B 29 529 159 HOH HOH . BA 4 HOH B 30 530 24 HOH HOH . CA 4 HOH C 1 501 170 HOH HOH . CA 4 HOH C 2 502 78 HOH HOH . CA 4 HOH C 3 503 35 HOH HOH . CA 4 HOH C 4 504 69 HOH HOH . CA 4 HOH C 5 505 20 HOH HOH . CA 4 HOH C 6 506 116 HOH HOH . CA 4 HOH C 7 507 36 HOH HOH . CA 4 HOH C 8 508 4 HOH HOH . CA 4 HOH C 9 509 92 HOH HOH . CA 4 HOH C 10 510 122 HOH HOH . CA 4 HOH C 11 511 97 HOH HOH . CA 4 HOH C 12 512 38 HOH HOH . CA 4 HOH C 13 513 126 HOH HOH . CA 4 HOH C 14 514 107 HOH HOH . CA 4 HOH C 15 515 52 HOH HOH . CA 4 HOH C 16 516 171 HOH HOH . CA 4 HOH C 17 517 121 HOH HOH . CA 4 HOH C 18 518 9 HOH HOH . CA 4 HOH C 19 519 60 HOH HOH . CA 4 HOH C 20 520 145 HOH HOH . CA 4 HOH C 21 521 151 HOH HOH . DA 4 HOH D 1 501 144 HOH HOH . DA 4 HOH D 2 502 104 HOH HOH . DA 4 HOH D 3 503 139 HOH HOH . DA 4 HOH D 4 504 29 HOH HOH . DA 4 HOH D 5 505 112 HOH HOH . DA 4 HOH D 6 506 79 HOH HOH . DA 4 HOH D 7 507 11 HOH HOH . DA 4 HOH D 8 508 131 HOH HOH . DA 4 HOH D 9 509 51 HOH HOH . DA 4 HOH D 10 510 96 HOH HOH . DA 4 HOH D 11 511 138 HOH HOH . DA 4 HOH D 12 512 165 HOH HOH . DA 4 HOH D 13 513 172 HOH HOH . EA 4 HOH E 1 501 120 HOH HOH . EA 4 HOH E 2 502 41 HOH HOH . EA 4 HOH E 3 503 25 HOH HOH . EA 4 HOH E 4 504 95 HOH HOH . EA 4 HOH E 5 505 167 HOH HOH . EA 4 HOH E 6 506 110 HOH HOH . EA 4 HOH E 7 507 136 HOH HOH . EA 4 HOH E 8 508 175 HOH HOH . EA 4 HOH E 9 509 89 HOH HOH . EA 4 HOH E 10 510 173 HOH HOH . EA 4 HOH E 11 511 180 HOH HOH . EA 4 HOH E 12 512 166 HOH HOH . EA 4 HOH E 13 513 164 HOH HOH . EA 4 HOH E 14 514 179 HOH HOH . EA 4 HOH E 15 515 174 HOH HOH . FA 4 HOH F 1 501 40 HOH HOH . FA 4 HOH F 2 502 19 HOH HOH . FA 4 HOH F 3 503 152 HOH HOH . FA 4 HOH F 4 504 129 HOH HOH . FA 4 HOH F 5 505 55 HOH HOH . FA 4 HOH F 6 506 169 HOH HOH . FA 4 HOH F 7 507 130 HOH HOH . FA 4 HOH F 8 508 8 HOH HOH . FA 4 HOH F 9 509 58 HOH HOH . FA 4 HOH F 10 510 177 HOH HOH . FA 4 HOH F 11 511 109 HOH HOH . FA 4 HOH F 12 512 49 HOH HOH . FA 4 HOH F 13 513 103 HOH HOH . FA 4 HOH F 14 514 47 HOH HOH . FA 4 HOH F 15 515 54 HOH HOH . FA 4 HOH F 16 516 82 HOH HOH . FA 4 HOH F 17 517 66 HOH HOH . FA 4 HOH F 18 518 30 HOH HOH . FA 4 HOH F 19 519 76 HOH HOH . FA 4 HOH F 20 520 26 HOH HOH . FA 4 HOH F 21 521 178 HOH HOH . FA 4 HOH F 22 522 18 HOH HOH . FA 4 HOH F 23 523 102 HOH HOH . FA 4 HOH F 24 524 168 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 . . . G 2 24.505 27.482 5.449 1 38.66 ? PA NAP 401 A 1 HETATM 2 O O1A NAP . . . G 2 23.558 27.049 4.379 1 37.28 ? O1A NAP 401 A 1 HETATM 3 O O2A NAP . . . G 2 24.1 28.587 6.367 1 38.79 ? O2A NAP 401 A 1 HETATM 4 O O5B NAP . . . G 2 24.98 26.22 6.318 1 39.19 ? O5B NAP 401 A 1 HETATM 5 C C5B NAP . . . G 2 25.729 26.456 7.552 1 40.52 ? C5B NAP 401 A 1 HETATM 6 C C4B NAP . . . G 2 25.683 25.204 8.397 1 40.42 ? C4B NAP 401 A 1 HETATM 7 O O4B NAP . . . G 2 26.397 25.359 9.651 1 39.13 ? O4B NAP 401 A 1 HETATM 8 C C3B NAP . . . G 2 24.277 24.749 8.833 1 39.55 ? C3B NAP 401 A 1 HETATM 9 O O3B NAP . . . G 2 24.043 23.405 8.424 1 38.4 ? O3B NAP 401 A 1 HETATM 10 C C2B NAP . . . G 2 24.284 24.831 10.361 1 40.66 ? C2B NAP 401 A 1 HETATM 11 O O2B NAP . . . G 2 23.418 23.845 10.902 1 40.69 ? O2B NAP 401 A 1 HETATM 12 C C1B NAP . . . G 2 25.756 24.531 10.598 1 40.32 ? C1B NAP 401 A 1 HETATM 13 N N9A NAP . . . G 2 26.252 24.829 11.924 1 40.53 ? N9A NAP 401 A 1 HETATM 14 C C8A NAP . . . G 2 26.771 23.899 12.784 1 41.16 ? C8A NAP 401 A 1 HETATM 15 N N7A NAP . . . G 2 27.17 24.41 13.918 1 41.43 ? N7A NAP 401 A 1 HETATM 16 C C5A NAP . . . G 2 26.887 25.762 13.792 1 41.98 ? C5A NAP 401 A 1 HETATM 17 C C6A NAP . . . G 2 27.071 26.846 14.663 1 40.51 ? C6A NAP 401 A 1 HETATM 18 N N6A NAP . . . G 2 27.605 26.734 15.876 1 39.76 ? N6A NAP 401 A 1 HETATM 19 N N1A NAP . . . G 2 26.67 28.062 14.224 1 41.25 ? N1A NAP 401 A 1 HETATM 20 C C2A NAP . . . G 2 26.129 28.168 13.001 1 41.54 ? C2A NAP 401 A 1 HETATM 21 N N3A NAP . . . G 2 25.913 27.225 12.096 1 42.42 ? N3A NAP 401 A 1 HETATM 22 C C4A NAP . . . G 2 26.318 26.035 12.563 1 41.9 ? C4A NAP 401 A 1 HETATM 23 O O3 NAP . . . G 2 25.875 27.917 4.746 1 38.94 ? O3 NAP 401 A 1 HETATM 24 P PN NAP . . . G 2 26.757 27.363 3.528 1 38.33 ? PN NAP 401 A 1 HETATM 25 O O1N NAP . . . G 2 26.252 27.987 2.27 1 36.59 ? O1N NAP 401 A 1 HETATM 26 O O2N NAP . . . G 2 26.869 25.877 3.606 1 37.44 ? O2N NAP 401 A 1 HETATM 27 O O5D NAP . . . G 2 28.156 28.024 3.918 1 39.36 ? O5D NAP 401 A 1 HETATM 28 C C5D NAP . . . G 2 28.708 27.745 5.222 1 40.23 ? C5D NAP 401 A 1 HETATM 29 C C4D NAP . . . G 2 29.872 28.678 5.415 1 40.41 ? C4D NAP 401 A 1 HETATM 30 O O4D NAP . . . G 2 30.898 28.364 4.455 1 39.51 ? O4D NAP 401 A 1 HETATM 31 C C3D NAP . . . G 2 29.593 30.165 5.153 1 39.89 ? C3D NAP 401 A 1 HETATM 32 O O3D NAP . . . G 2 28.894 30.78 6.228 1 39.08 ? O3D NAP 401 A 1 HETATM 33 C C2D NAP . . . G 2 31.015 30.701 4.936 1 39.39 ? C2D NAP 401 A 1 HETATM 34 O O2D NAP . . . G 2 31.643 30.965 6.18 1 38.58 ? O2D NAP 401 A 1 HETATM 35 C C1D NAP . . . G 2 31.701 29.514 4.242 1 39.12 ? C1D NAP 401 A 1 HETATM 36 N N1N NAP . . . G 2 31.831 29.737 2.781 1 38.54 ? N1N NAP 401 A 1 HETATM 37 C C2N NAP . . . G 2 33.061 29.691 2.162 1 37.21 ? C2N NAP 401 A 1 HETATM 38 C C3N NAP . . . G 2 33.151 29.934 0.792 1 37.27 ? C3N NAP 401 A 1 HETATM 39 C C7N NAP . . . G 2 34.47 29.885 0.084 1 35.81 ? C7N NAP 401 A 1 HETATM 40 O O7N NAP . . . G 2 35.474 29.454 0.671 1 34.76 ? O7N NAP 401 A 1 HETATM 41 N N7N NAP . . . G 2 34.532 30.378 -1.146 1 34.79 ? N7N NAP 401 A 1 HETATM 42 C C4N NAP . . . G 2 32.003 30.174 0.053 1 36.76 ? C4N NAP 401 A 1 HETATM 43 C C5N NAP . . . G 2 30.779 30.205 0.685 1 37.76 ? C5N NAP 401 A 1 HETATM 44 C C6N NAP . . . G 2 30.702 29.993 2.042 1 39.01 ? C6N NAP 401 A 1 HETATM 45 P P2B NAP . . . G 2 22.667 24.362 12.238 1 42 ? P2B NAP 401 A 1 HETATM 46 O O1X NAP . . . G 2 22.894 25.85 12.444 1 42.5 ? O1X NAP 401 A 1 HETATM 47 O O2X NAP . . . G 2 21.21 24.031 11.983 1 43.34 ? O2X NAP 401 A 1 HETATM 48 O O3X NAP . . . G 2 23.243 23.556 13.38 1 41.24 ? O3X NAP 401 A 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 51 _model_server_stats.query_time_ms 675 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 48 #