data_4XT5 # _model_server_result.job_id -1PwlROfjGpczMEeo7sNQg _model_server_result.datetime_utc '2024-11-27 03:02:18' _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 4xt5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 4XT5 # _exptl.entry_id 4XT5 _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 90 _cell.entry_id 4XT5 _cell.length_a 69.697 _cell.length_b 95.26 _cell.length_c 73.854 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XT5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 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 _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' 3_655 -x+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 69.697 0 36.927 # _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 237 n n PA O2A NAP sing 238 n n PA O5B NAP sing 239 n n PA O3 NAP sing 240 n n O2A HOA2 NAP sing 241 n n O5B C5B NAP sing 242 n n C5B C4B NAP sing 243 n n C5B H51A NAP sing 244 n n C5B H52A NAP sing 245 n n C4B O4B NAP sing 246 n n C4B C3B NAP sing 247 n n C4B H4B NAP sing 248 n n O4B C1B NAP sing 249 n n C3B O3B NAP sing 250 n n C3B C2B NAP sing 251 n n C3B H3B NAP sing 252 n n O3B HO3A NAP sing 253 n n C2B O2B NAP sing 254 n n C2B C1B NAP sing 255 n n C2B H2B NAP sing 256 n n O2B P2B NAP sing 257 n n C1B N9A NAP sing 258 n n C1B H1B NAP sing 259 n n N9A C8A NAP sing 260 n y N9A C4A NAP sing 261 n y C8A N7A NAP doub 262 n y C8A H8A NAP sing 263 n n N7A C5A NAP sing 264 n y C5A C6A NAP sing 265 n y C5A C4A NAP doub 266 n y C6A N6A NAP sing 267 n n C6A N1A NAP doub 268 n y N6A H61A NAP sing 269 n n N6A H62A NAP sing 270 n n N1A C2A NAP sing 271 n y C2A N3A NAP doub 272 n y C2A H2A NAP sing 273 n n N3A C4A NAP sing 274 n y O3 PN NAP sing 275 n n PN O1N NAP doub 276 n n PN O2N NAP sing 277 n n PN O5D NAP sing 278 n n O5D C5D NAP sing 279 n n C5D C4D NAP sing 280 n n C5D H51N NAP sing 281 n n C5D H52N NAP sing 282 n n C4D O4D NAP sing 283 n n C4D C3D NAP sing 284 n n C4D H4D NAP sing 285 n n O4D C1D NAP sing 286 n n C3D O3D NAP sing 287 n n C3D C2D NAP sing 288 n n C3D H3D NAP sing 289 n n O3D HO3N NAP sing 290 n n C2D O2D NAP sing 291 n n C2D C1D NAP sing 292 n n C2D H2D NAP sing 293 n n O2D HO2N NAP sing 294 n n C1D N1N NAP sing 295 n n C1D H1D NAP sing 296 n n N1N C2N NAP sing 297 n y N1N C6N NAP doub 298 n y C2N C3N NAP doub 299 n y C2N H2N NAP sing 300 n n C3N C7N NAP sing 301 n n C3N C4N NAP sing 302 n y C7N O7N NAP doub 303 n n C7N N7N NAP sing 304 n n N7N H71N NAP sing 305 n n N7N H72N NAP sing 306 n n C4N C5N NAP doub 307 n y C4N H4N NAP sing 308 n n C5N C6N NAP sing 309 n y C5N H5N NAP sing 310 n n C6N H6N NAP sing 311 n n P2B O1X NAP doub 312 n n P2B O2X NAP sing 313 n n P2B O3X NAP sing 314 n n O2X HOP2 NAP sing 315 n n O3X HOP3 NAP sing 316 n n # _atom_sites.entry_id 4XT5 _atom_sites.fract_transf_matrix[1][1] 0.014348 _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] 0.010498 _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] 0.01354 _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 1 301 259 NAP NAP . C 3 HOH A 1 401 31 HOH HOH . C 3 HOH A 2 402 22 HOH HOH . C 3 HOH A 3 403 8 HOH HOH . C 3 HOH A 4 404 24 HOH HOH . C 3 HOH A 5 405 3 HOH HOH . C 3 HOH A 6 406 2 HOH HOH . C 3 HOH A 7 407 9 HOH HOH . C 3 HOH A 8 408 21 HOH HOH . C 3 HOH A 9 409 33 HOH HOH . C 3 HOH A 10 410 50 HOH HOH . C 3 HOH A 11 411 19 HOH HOH . C 3 HOH A 12 412 79 HOH HOH . C 3 HOH A 13 413 16 HOH HOH . C 3 HOH A 14 414 14 HOH HOH . C 3 HOH A 15 415 55 HOH HOH . C 3 HOH A 16 416 71 HOH HOH . C 3 HOH A 17 417 47 HOH HOH . C 3 HOH A 18 418 68 HOH HOH . C 3 HOH A 19 419 70 HOH HOH . C 3 HOH A 20 420 27 HOH HOH . C 3 HOH A 21 421 1 HOH HOH . C 3 HOH A 22 422 5 HOH HOH . C 3 HOH A 23 423 6 HOH HOH . C 3 HOH A 24 424 7 HOH HOH . C 3 HOH A 25 425 11 HOH HOH . C 3 HOH A 26 426 12 HOH HOH . C 3 HOH A 27 427 15 HOH HOH . C 3 HOH A 28 428 17 HOH HOH . C 3 HOH A 29 429 18 HOH HOH . C 3 HOH A 30 430 20 HOH HOH . C 3 HOH A 31 431 23 HOH HOH . C 3 HOH A 32 432 25 HOH HOH . C 3 HOH A 33 433 26 HOH HOH . C 3 HOH A 34 434 28 HOH HOH . C 3 HOH A 35 435 29 HOH HOH . C 3 HOH A 36 436 30 HOH HOH . C 3 HOH A 37 437 34 HOH HOH . C 3 HOH A 38 438 35 HOH HOH . C 3 HOH A 39 439 37 HOH HOH . C 3 HOH A 40 440 38 HOH HOH . C 3 HOH A 41 441 39 HOH HOH . C 3 HOH A 42 442 40 HOH HOH . C 3 HOH A 43 443 41 HOH HOH . C 3 HOH A 44 444 42 HOH HOH . C 3 HOH A 45 445 43 HOH HOH . C 3 HOH A 46 446 44 HOH HOH . C 3 HOH A 47 447 46 HOH HOH . C 3 HOH A 48 448 53 HOH HOH . C 3 HOH A 49 449 58 HOH HOH . C 3 HOH A 50 450 59 HOH HOH . C 3 HOH A 51 451 60 HOH HOH . C 3 HOH A 52 452 65 HOH HOH . C 3 HOH A 53 453 69 HOH HOH . C 3 HOH A 54 454 72 HOH HOH . C 3 HOH A 55 455 74 HOH HOH . C 3 HOH A 56 456 75 HOH HOH . C 3 HOH A 57 457 78 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 20.578 16.12 14.482 1 23.78 ? PA NAP 301 A 1 HETATM 2 O O1A NAP . . . B 2 21.494 16.519 13.358 1 20.51 ? O1A NAP 301 A 1 HETATM 3 O O2A NAP . . . B 2 19.45 17.113 14.628 1 22.97 -1 O2A NAP 301 A 1 HETATM 4 O O5B NAP . . . B 2 19.947 14.73 14.265 1 26.98 ? O5B NAP 301 A 1 HETATM 5 C C5B NAP . . . B 2 20.484 13.751 13.487 1 28.53 ? C5B NAP 301 A 1 HETATM 6 C C4B NAP . . . B 2 19.425 12.991 12.739 1 26.13 ? C4B NAP 301 A 1 HETATM 7 O O4B NAP . . . B 2 18.585 13.932 11.979 1 26.46 ? O4B NAP 301 A 1 HETATM 8 C C3B NAP . . . B 2 19.932 12.003 11.751 1 27.73 ? C3B NAP 301 A 1 HETATM 9 O O3B NAP . . . B 2 20.112 10.739 12.251 1 22.86 ? O3B NAP 301 A 1 HETATM 10 C C2B NAP . . . B 2 18.91 12.015 10.721 1 23.84 ? C2B NAP 301 A 1 HETATM 11 O O2B NAP . . . B 2 17.726 11.422 11.103 1 32 ? O2B NAP 301 A 1 HETATM 12 C C1B NAP . . . B 2 18.624 13.491 10.668 1 25.97 ? C1B NAP 301 A 1 HETATM 13 N N9A NAP . . . B 2 19.527 14.224 9.785 1 26.3 ? N9A NAP 301 A 1 HETATM 14 C C8A NAP . . . B 2 20.475 15.128 10.104 1 23.32 ? C8A NAP 301 A 1 HETATM 15 N N7A NAP . . . B 2 21.023 15.532 8.952 1 26.22 ? N7A NAP 301 A 1 HETATM 16 C C5A NAP . . . B 2 20.425 14.887 7.93 1 24.31 ? C5A NAP 301 A 1 HETATM 17 C C6A NAP . . . B 2 20.564 14.88 6.561 1 24.39 ? C6A NAP 301 A 1 HETATM 18 N N6A NAP . . . B 2 21.545 15.74 5.944 1 23.93 ? N6A NAP 301 A 1 HETATM 19 N N1A NAP . . . B 2 19.792 14.087 5.809 1 26.47 ? N1A NAP 301 A 1 HETATM 20 C C2A NAP . . . B 2 18.86 13.275 6.356 1 27.21 ? C2A NAP 301 A 1 HETATM 21 N N3A NAP . . . B 2 18.713 13.261 7.68 1 26.75 ? N3A NAP 301 A 1 HETATM 22 C C4A NAP . . . B 2 19.48 14.05 8.467 1 23.21 ? C4A NAP 301 A 1 HETATM 23 O O3 NAP . . . B 2 21.327 16.109 15.84 1 31.37 ? O3 NAP 301 A 1 HETATM 24 P PN NAP . . . B 2 22.515 15.201 16.248 1 30.42 ? PN NAP 301 A 1 HETATM 25 O O1N NAP . . . B 2 23.632 15.228 15.245 1 28.1 -1 O1N NAP 301 A 1 HETATM 26 O O2N NAP . . . B 2 21.979 13.813 16.469 1 29.76 ? O2N NAP 301 A 1 HETATM 27 O O5D NAP . . . B 2 23.056 15.845 17.562 1 35.33 ? O5D NAP 301 A 1 HETATM 28 C C5D NAP . . . B 2 22.217 16.279 18.597 1 37.99 ? C5D NAP 301 A 1 HETATM 29 C C4D NAP . . . B 2 22.997 17.002 19.701 1 41.82 ? C4D NAP 301 A 1 HETATM 30 O O4D NAP . . . B 2 23.576 18.204 19.308 1 38.02 ? O4D NAP 301 A 1 HETATM 31 C C3D NAP . . . B 2 22.165 17.307 20.937 1 41.12 ? C3D NAP 301 A 1 HETATM 32 O O3D NAP . . . B 2 22.976 17.052 21.971 1 42.08 ? O3D NAP 301 A 1 HETATM 33 C C2D NAP . . . B 2 21.866 18.734 20.844 1 39.83 ? C2D NAP 301 A 1 HETATM 34 O O2D NAP . . . B 2 21.649 19.333 22.076 1 41.09 ? O2D NAP 301 A 1 HETATM 35 C C1D NAP . . . B 2 23.089 19.299 20.2 1 44.76 ? C1D NAP 301 A 1 HETATM 36 N N1N NAP . . . B 2 22.874 20.654 19.615 1 40.09 ? N1N NAP 301 A 1 HETATM 37 C C2N NAP . . . B 2 23.718 21.666 19.92 1 41.17 ? C2N NAP 301 A 1 HETATM 38 C C3N NAP . . . B 2 23.511 22.934 19.39 1 37.09 ? C3N NAP 301 A 1 HETATM 39 C C7N NAP . . . B 2 24.43 24.074 19.719 1 32.8 ? C7N NAP 301 A 1 HETATM 40 O O7N NAP . . . B 2 24.251 25.157 19.178 1 28.23 ? O7N NAP 301 A 1 HETATM 41 N N7N NAP . . . B 2 25.503 23.918 20.719 1 26.5 ? N7N NAP 301 A 1 HETATM 42 C C4N NAP . . . B 2 22.42 23.142 18.55 1 38.31 ? C4N NAP 301 A 1 HETATM 43 C C5N NAP . . . B 2 21.562 22.088 18.243 1 32.54 ? C5N NAP 301 A 1 HETATM 44 C C6N NAP . . . B 2 21.813 20.851 18.803 1 35.12 ? C6N NAP 301 A 1 HETATM 45 P P2B NAP . . . B 2 17.404 9.933 10.814 1 29.19 ? P2B NAP 301 A 1 HETATM 46 O O1X NAP . . . B 2 17.734 9.611 9.38 1 25.38 ? O1X NAP 301 A 1 HETATM 47 O O2X NAP . . . B 2 15.921 9.738 11.106 1 30.33 -1 O2X NAP 301 A 1 HETATM 48 O O3X NAP . . . B 2 18.239 9.099 11.733 1 29.03 -1 O3X NAP 301 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 48 #