data_1NM5 # _model_server_result.job_id wzU4SnUMjWrRkiwlh9kQAQ _model_server_result.datetime_utc '2024-11-11 11:54:31' _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 1nm5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":300}' # _entry.id 1NM5 # _exptl.entry_id 1NM5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 5 _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 1NM5 _cell.length_a 71.939 _cell.length_b 73.886 _cell.length_c 205.257 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NM5 _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id G _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 325 n n PA O2A NAP sing 326 n n PA O5B NAP sing 327 n n PA O3 NAP sing 328 n n O2A HOA2 NAP sing 329 n n O5B C5B NAP sing 330 n n C5B C4B NAP sing 331 n n C5B H51A NAP sing 332 n n C5B H52A NAP sing 333 n n C4B O4B NAP sing 334 n n C4B C3B NAP sing 335 n n C4B H4B NAP sing 336 n n O4B C1B NAP sing 337 n n C3B O3B NAP sing 338 n n C3B C2B NAP sing 339 n n C3B H3B NAP sing 340 n n O3B HO3A NAP sing 341 n n C2B O2B NAP sing 342 n n C2B C1B NAP sing 343 n n C2B H2B NAP sing 344 n n O2B P2B NAP sing 345 n n C1B N9A NAP sing 346 n n C1B H1B NAP sing 347 n n N9A C8A NAP sing 348 n y N9A C4A NAP sing 349 n y C8A N7A NAP doub 350 n y C8A H8A NAP sing 351 n n N7A C5A NAP sing 352 n y C5A C6A NAP sing 353 n y C5A C4A NAP doub 354 n y C6A N6A NAP sing 355 n n C6A N1A NAP doub 356 n y N6A H61A NAP sing 357 n n N6A H62A NAP sing 358 n n N1A C2A NAP sing 359 n y C2A N3A NAP doub 360 n y C2A H2A NAP sing 361 n n N3A C4A NAP sing 362 n y O3 PN NAP sing 363 n n PN O1N NAP doub 364 n n PN O2N NAP sing 365 n n PN O5D NAP sing 366 n n O5D C5D NAP sing 367 n n C5D C4D NAP sing 368 n n C5D H51N NAP sing 369 n n C5D H52N NAP sing 370 n n C4D O4D NAP sing 371 n n C4D C3D NAP sing 372 n n C4D H4D NAP sing 373 n n O4D C1D NAP sing 374 n n C3D O3D NAP sing 375 n n C3D C2D NAP sing 376 n n C3D H3D NAP sing 377 n n O3D HO3N NAP sing 378 n n C2D O2D NAP sing 379 n n C2D C1D NAP sing 380 n n C2D H2D NAP sing 381 n n O2D HO2N NAP sing 382 n n C1D N1N NAP sing 383 n n C1D H1D NAP sing 384 n n N1N C2N NAP sing 385 n y N1N C6N NAP doub 386 n y C2N C3N NAP doub 387 n y C2N H2N NAP sing 388 n n C3N C7N NAP sing 389 n n C3N C4N NAP sing 390 n y C7N O7N NAP doub 391 n n C7N N7N NAP sing 392 n n N7N H71N NAP sing 393 n n N7N H72N NAP sing 394 n n C4N C5N NAP doub 395 n y C4N H4N NAP sing 396 n n C5N C6N NAP sing 397 n y C5N H5N NAP sing 398 n n C6N H6N NAP sing 399 n n P2B O1X NAP doub 400 n n P2B O2X NAP sing 401 n n P2B O3X NAP sing 402 n n O2X HOP2 NAP sing 403 n n O3X HOP3 NAP sing 404 n n # _atom_sites.entry_id 1NM5 _atom_sites.fract_transf_matrix[1][1] 0.013901 _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] 0.013534 _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] 0.004872 _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 D 3 NAD A 1 400 400 NAD NAD . E 3 NAD B 1 500 500 NAD NAD . F 4 GOL B 1 501 1 GOL GOL . G 5 NAP C 1 300 300 NAP NAP . H 6 HOH A 1 401 2 HOH HOH . H 6 HOH A 2 402 5 HOH HOH . H 6 HOH A 3 403 7 HOH HOH . H 6 HOH A 4 404 8 HOH HOH . H 6 HOH A 5 405 12 HOH HOH . H 6 HOH A 6 406 14 HOH HOH . H 6 HOH A 7 407 15 HOH HOH . H 6 HOH A 8 408 18 HOH HOH . H 6 HOH A 9 409 26 HOH HOH . H 6 HOH A 10 410 28 HOH HOH . H 6 HOH A 11 411 32 HOH HOH . H 6 HOH A 12 412 34 HOH HOH . H 6 HOH A 13 413 35 HOH HOH . H 6 HOH A 14 414 36 HOH HOH . H 6 HOH A 15 415 38 HOH HOH . H 6 HOH A 16 416 39 HOH HOH . H 6 HOH A 17 417 40 HOH HOH . H 6 HOH A 18 418 45 HOH HOH . H 6 HOH A 19 419 48 HOH HOH . H 6 HOH A 20 420 52 HOH HOH . H 6 HOH A 21 421 57 HOH HOH . H 6 HOH A 22 422 58 HOH HOH . H 6 HOH A 23 423 59 HOH HOH . H 6 HOH A 24 424 60 HOH HOH . H 6 HOH A 25 425 61 HOH HOH . H 6 HOH A 26 426 62 HOH HOH . H 6 HOH A 27 427 67 HOH HOH . H 6 HOH A 28 428 68 HOH HOH . I 6 HOH B 1 502 4 HOH HOH . I 6 HOH B 2 503 6 HOH HOH . I 6 HOH B 3 504 9 HOH HOH . I 6 HOH B 4 505 10 HOH HOH . I 6 HOH B 5 506 11 HOH HOH . I 6 HOH B 6 507 13 HOH HOH . I 6 HOH B 7 508 16 HOH HOH . I 6 HOH B 8 509 17 HOH HOH . I 6 HOH B 9 510 20 HOH HOH . I 6 HOH B 10 511 21 HOH HOH . I 6 HOH B 11 512 22 HOH HOH . I 6 HOH B 12 513 23 HOH HOH . I 6 HOH B 13 514 24 HOH HOH . I 6 HOH B 14 515 27 HOH HOH . I 6 HOH B 15 516 29 HOH HOH . I 6 HOH B 16 517 31 HOH HOH . I 6 HOH B 17 518 33 HOH HOH . I 6 HOH B 18 519 37 HOH HOH . I 6 HOH B 19 520 41 HOH HOH . I 6 HOH B 20 521 42 HOH HOH . I 6 HOH B 21 522 43 HOH HOH . I 6 HOH B 22 523 44 HOH HOH . I 6 HOH B 23 524 46 HOH HOH . I 6 HOH B 24 525 47 HOH HOH . I 6 HOH B 25 526 49 HOH HOH . I 6 HOH B 26 527 50 HOH HOH . I 6 HOH B 27 528 51 HOH HOH . I 6 HOH B 28 529 55 HOH HOH . I 6 HOH B 29 530 56 HOH HOH . I 6 HOH B 30 531 65 HOH HOH . I 6 HOH B 31 532 69 HOH HOH . J 6 HOH C 1 301 3 HOH HOH . J 6 HOH C 2 302 19 HOH HOH . J 6 HOH C 3 303 30 HOH HOH . J 6 HOH C 4 304 53 HOH HOH . J 6 HOH C 5 305 54 HOH HOH . J 6 HOH C 6 306 63 HOH HOH . J 6 HOH C 7 307 64 HOH HOH . J 6 HOH C 8 308 66 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 5 -25.205 -36.589 7.79 1 66.36 ? PA NAP 300 C 1 HETATM 2 O O1A NAP . . . G 5 -26.533 -37.144 8.029 1 67.25 ? O1A NAP 300 C 1 HETATM 3 O O2A NAP . . . G 5 -24.178 -37.479 8.49 1 66.62 ? O2A NAP 300 C 1 HETATM 4 O O5B NAP . . . G 5 -24.876 -36.465 6.239 1 67.93 ? O5B NAP 300 C 1 HETATM 5 C C5B NAP . . . G 5 -23.794 -35.655 5.858 1 69.09 ? C5B NAP 300 C 1 HETATM 6 C C4B NAP . . . G 5 -23.57 -35.752 4.365 1 69.67 ? C4B NAP 300 C 1 HETATM 7 O O4B NAP . . . G 5 -22.488 -34.926 3.975 1 69.86 ? O4B NAP 300 C 1 HETATM 8 C C3B NAP . . . G 5 -23.209 -37.185 3.982 1 70.88 ? C3B NAP 300 C 1 HETATM 9 O O3B NAP . . . G 5 -24.308 -37.842 3.378 1 71.85 ? O3B NAP 300 C 1 HETATM 10 C C2B NAP . . . G 5 -22.001 -37.052 3.069 1 70.33 ? C2B NAP 300 C 1 HETATM 11 O O2B NAP . . . G 5 -22.197 -37.776 1.873 1 70.5 ? O2B NAP 300 C 1 HETATM 12 C C1B NAP . . . G 5 -21.844 -35.531 2.883 1 68.47 ? C1B NAP 300 C 1 HETATM 13 N N9A NAP . . . G 5 -20.438 -35.116 2.82 1 65.87 ? N9A NAP 300 C 1 HETATM 14 C C8A NAP . . . G 5 -19.382 -35.612 3.534 1 64.62 ? C8A NAP 300 C 1 HETATM 15 N N7A NAP . . . G 5 -18.259 -34.966 3.126 1 64.36 ? N7A NAP 300 C 1 HETATM 16 C C5A NAP . . . G 5 -18.581 -34.069 2.174 1 64.36 ? C5A NAP 300 C 1 HETATM 17 C C6A NAP . . . G 5 -17.828 -33.159 1.443 1 65.27 ? C6A NAP 300 C 1 HETATM 18 N N6A NAP . . . G 5 -16.551 -32.938 1.732 1 64.63 ? N6A NAP 300 C 1 HETATM 19 N N1A NAP . . . G 5 -18.452 -32.358 0.514 1 66.08 ? N1A NAP 300 C 1 HETATM 20 C C2A NAP . . . G 5 -19.82 -32.465 0.324 1 65.93 ? C2A NAP 300 C 1 HETATM 21 N N3A NAP . . . G 5 -20.558 -33.36 1.06 1 65.14 ? N3A NAP 300 C 1 HETATM 22 C C4A NAP . . . G 5 -19.948 -34.154 1.97 1 65.43 ? C4A NAP 300 C 1 HETATM 23 O O3 NAP . . . G 5 -25.149 -35.035 8.205 1 66.43 ? O3 NAP 300 C 1 HETATM 24 P PN NAP . . . G 5 -26.316 -34.205 8.916 1 67.51 ? PN NAP 300 C 1 HETATM 25 O O1N NAP . . . G 5 -27.515 -34.179 8.085 1 68 ? O1N NAP 300 C 1 HETATM 26 O O2N NAP . . . G 5 -25.721 -32.882 9.223 1 67.12 ? O2N NAP 300 C 1 HETATM 27 O O5D NAP . . . G 5 -26.717 -35.066 10.211 1 67.84 ? O5D NAP 300 C 1 HETATM 28 C C5D NAP . . . G 5 -25.878 -35.226 11.332 1 70.04 ? C5D NAP 300 C 1 HETATM 29 C C4D NAP . . . G 5 -26.013 -36.645 11.877 1 70.73 ? C4D NAP 300 C 1 HETATM 30 O O4D NAP . . . G 5 -24.992 -36.93 12.828 1 70.49 ? O4D NAP 300 C 1 HETATM 31 C C3D NAP . . . G 5 -27.345 -36.878 12.579 1 71.38 ? C3D NAP 300 C 1 HETATM 32 O O3D NAP . . . G 5 -27.851 -38.154 12.27 1 72.31 ? O3D NAP 300 C 1 HETATM 33 C C2D NAP . . . G 5 -26.999 -36.852 14.04 1 71.13 ? C2D NAP 300 C 1 HETATM 34 O O2D NAP . . . G 5 -27.842 -37.688 14.78 1 72.32 ? O2D NAP 300 C 1 HETATM 35 C C1D NAP . . . G 5 -25.566 -37.369 14.046 1 70.79 ? C1D NAP 300 C 1 HETATM 36 N N1N NAP . . . G 5 -24.816 -36.887 15.221 1 70.68 ? N1N NAP 300 C 1 HETATM 37 C C2N NAP . . . G 5 -24.849 -35.551 15.522 1 68.91 ? C2N NAP 300 C 1 HETATM 38 C C3N NAP . . . G 5 -24.157 -35.089 16.633 1 69.11 ? C3N NAP 300 C 1 HETATM 39 C C7N NAP . . . G 5 -24.232 -33.637 16.974 1 66.99 ? C7N NAP 300 C 1 HETATM 40 O O7N NAP . . . G 5 -24.145 -33.258 18.313 1 65.01 ? O7N NAP 300 C 1 HETATM 41 N N7N NAP . . . G 5 -24.384 -32.745 15.994 1 67.03 ? N7N NAP 300 C 1 HETATM 42 C C4N NAP . . . G 5 -23.426 -35.97 17.427 1 69.7 ? C4N NAP 300 C 1 HETATM 43 C C5N NAP . . . G 5 -23.403 -37.33 17.104 1 69.97 ? C5N NAP 300 C 1 HETATM 44 C C6N NAP . . . G 5 -24.1 -37.782 15.987 1 70.05 ? C6N NAP 300 C 1 HETATM 45 P P2B NAP . . . G 5 -21.043 -37.935 0.768 1 71.75 ? P2B NAP 300 C 1 HETATM 46 O O1X NAP . . . G 5 -21.615 -38.763 -0.306 1 74.27 ? O1X NAP 300 C 1 HETATM 47 O O2X NAP . . . G 5 -20.598 -36.587 0.196 1 71.36 ? O2X NAP 300 C 1 HETATM 48 O O3X NAP . . . G 5 -19.819 -38.649 1.344 1 74.14 ? O3X NAP 300 C 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 48 #