data_5DE1 # _model_server_result.job_id ZuMZ-QMscGcTwhVYIMEx3A _model_server_result.datetime_utc '2025-01-09 18:13:04' _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 5de1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 5DE1 # _exptl.entry_id 5DE1 _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 5DE1 _cell.length_a 82.726 _cell.length_b 82.726 _cell.length_c 303.639 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DE1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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,H _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 306 n n PA O2A NAP sing 307 n n PA O5B NAP sing 308 n n PA O3 NAP sing 309 n n O2A HOA2 NAP sing 310 n n O5B C5B NAP sing 311 n n C5B C4B NAP sing 312 n n C5B H51A NAP sing 313 n n C5B H52A NAP sing 314 n n C4B O4B NAP sing 315 n n C4B C3B NAP sing 316 n n C4B H4B NAP sing 317 n n O4B C1B NAP sing 318 n n C3B O3B NAP sing 319 n n C3B C2B NAP sing 320 n n C3B H3B NAP sing 321 n n O3B HO3A NAP sing 322 n n C2B O2B NAP sing 323 n n C2B C1B NAP sing 324 n n C2B H2B NAP sing 325 n n O2B P2B NAP sing 326 n n C1B N9A NAP sing 327 n n C1B H1B NAP sing 328 n n N9A C8A NAP sing 329 n y N9A C4A NAP sing 330 n y C8A N7A NAP doub 331 n y C8A H8A NAP sing 332 n n N7A C5A NAP sing 333 n y C5A C6A NAP sing 334 n y C5A C4A NAP doub 335 n y C6A N6A NAP sing 336 n n C6A N1A NAP doub 337 n y N6A H61A NAP sing 338 n n N6A H62A NAP sing 339 n n N1A C2A NAP sing 340 n y C2A N3A NAP doub 341 n y C2A H2A NAP sing 342 n n N3A C4A NAP sing 343 n y O3 PN NAP sing 344 n n PN O1N NAP doub 345 n n PN O2N NAP sing 346 n n PN O5D NAP sing 347 n n O5D C5D NAP sing 348 n n C5D C4D NAP sing 349 n n C5D H51N NAP sing 350 n n C5D H52N NAP sing 351 n n C4D O4D NAP sing 352 n n C4D C3D NAP sing 353 n n C4D H4D NAP sing 354 n n O4D C1D NAP sing 355 n n C3D O3D NAP sing 356 n n C3D C2D NAP sing 357 n n C3D H3D NAP sing 358 n n O3D HO3N NAP sing 359 n n C2D O2D NAP sing 360 n n C2D C1D NAP sing 361 n n C2D H2D NAP sing 362 n n O2D HO2N NAP sing 363 n n C1D N1N NAP sing 364 n n C1D H1D NAP sing 365 n n N1N C2N NAP sing 366 n y N1N C6N NAP doub 367 n y C2N C3N NAP doub 368 n y C2N H2N NAP sing 369 n n C3N C7N NAP sing 370 n n C3N C4N NAP sing 371 n y C7N O7N NAP doub 372 n n C7N N7N NAP sing 373 n n N7N H71N NAP sing 374 n n N7N H72N NAP sing 375 n n C4N C5N NAP doub 376 n y C4N H4N NAP sing 377 n n C5N C6N NAP sing 378 n y C5N H5N NAP sing 379 n n C6N H6N NAP sing 380 n n P2B O1X NAP doub 381 n n P2B O2X NAP sing 382 n n P2B O3X NAP sing 383 n n O2X HOP2 NAP sing 384 n n O3X HOP3 NAP sing 385 n n # _atom_sites.entry_id 5DE1 _atom_sites.fract_transf_matrix[1][1] 0.012088 _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] 0.012088 _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] 0.003293 _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 1 501 1 NAP NAP . D 3 59D A 1 502 2 59D LIG . E 2 NAP B 1 501 2 NAP NAP . F 3 59D B 1 502 1 59D LIG . G 4 HOH A 1 601 109 HOH HOH . G 4 HOH A 2 602 54 HOH HOH . G 4 HOH A 3 603 47 HOH HOH . G 4 HOH A 4 604 165 HOH HOH . G 4 HOH A 5 605 104 HOH HOH . G 4 HOH A 6 606 159 HOH HOH . G 4 HOH A 7 607 158 HOH HOH . G 4 HOH A 8 608 25 HOH HOH . G 4 HOH A 9 609 116 HOH HOH . G 4 HOH A 10 610 56 HOH HOH . G 4 HOH A 11 611 162 HOH HOH . G 4 HOH A 12 612 12 HOH HOH . G 4 HOH A 13 613 161 HOH HOH . G 4 HOH A 14 614 44 HOH HOH . G 4 HOH A 15 615 117 HOH HOH . G 4 HOH A 16 616 166 HOH HOH . G 4 HOH A 17 617 103 HOH HOH . G 4 HOH A 18 618 130 HOH HOH . G 4 HOH A 19 619 53 HOH HOH . G 4 HOH A 20 620 115 HOH HOH . G 4 HOH A 21 621 29 HOH HOH . G 4 HOH A 22 622 95 HOH HOH . G 4 HOH A 23 623 122 HOH HOH . G 4 HOH A 24 624 139 HOH HOH . G 4 HOH A 25 625 52 HOH HOH . G 4 HOH A 26 626 43 HOH HOH . G 4 HOH A 27 627 153 HOH HOH . G 4 HOH A 28 628 26 HOH HOH . G 4 HOH A 29 629 110 HOH HOH . G 4 HOH A 30 630 19 HOH HOH . G 4 HOH A 31 631 123 HOH HOH . G 4 HOH A 32 632 27 HOH HOH . G 4 HOH A 33 633 151 HOH HOH . G 4 HOH A 34 634 79 HOH HOH . G 4 HOH A 35 635 111 HOH HOH . G 4 HOH A 36 636 11 HOH HOH . G 4 HOH A 37 637 48 HOH HOH . G 4 HOH A 38 638 100 HOH HOH . G 4 HOH A 39 639 121 HOH HOH . G 4 HOH A 40 640 84 HOH HOH . G 4 HOH A 41 641 22 HOH HOH . G 4 HOH A 42 642 6 HOH HOH . G 4 HOH A 43 643 108 HOH HOH . G 4 HOH A 44 644 75 HOH HOH . G 4 HOH A 45 645 167 HOH HOH . G 4 HOH A 46 646 89 HOH HOH . G 4 HOH A 47 647 74 HOH HOH . G 4 HOH A 48 648 49 HOH HOH . G 4 HOH A 49 649 46 HOH HOH . G 4 HOH A 50 650 126 HOH HOH . G 4 HOH A 51 651 88 HOH HOH . G 4 HOH A 52 652 152 HOH HOH . G 4 HOH A 53 653 93 HOH HOH . G 4 HOH A 54 654 119 HOH HOH . G 4 HOH A 55 655 91 HOH HOH . G 4 HOH A 56 656 55 HOH HOH . G 4 HOH A 57 657 85 HOH HOH . G 4 HOH A 58 658 112 HOH HOH . G 4 HOH A 59 659 17 HOH HOH . G 4 HOH A 60 660 150 HOH HOH . G 4 HOH A 61 661 149 HOH HOH . G 4 HOH A 62 662 82 HOH HOH . G 4 HOH A 63 663 81 HOH HOH . G 4 HOH A 64 664 87 HOH HOH . G 4 HOH A 65 665 51 HOH HOH . G 4 HOH A 66 666 134 HOH HOH . G 4 HOH A 67 667 147 HOH HOH . G 4 HOH A 68 668 73 HOH HOH . G 4 HOH A 69 669 92 HOH HOH . G 4 HOH A 70 670 76 HOH HOH . G 4 HOH A 71 671 2 HOH HOH . G 4 HOH A 72 672 96 HOH HOH . G 4 HOH A 73 673 102 HOH HOH . G 4 HOH A 74 674 160 HOH HOH . G 4 HOH A 75 675 77 HOH HOH . G 4 HOH A 76 676 90 HOH HOH . G 4 HOH A 77 677 45 HOH HOH . G 4 HOH A 78 678 101 HOH HOH . G 4 HOH A 79 679 66 HOH HOH . G 4 HOH A 80 680 99 HOH HOH . G 4 HOH A 81 681 125 HOH HOH . G 4 HOH A 82 682 124 HOH HOH . G 4 HOH A 83 683 164 HOH HOH . G 4 HOH A 84 684 148 HOH HOH . G 4 HOH A 85 685 83 HOH HOH . G 4 HOH A 86 686 94 HOH HOH . G 4 HOH A 87 687 86 HOH HOH . G 4 HOH A 88 688 146 HOH HOH . H 4 HOH B 1 601 36 HOH HOH . H 4 HOH B 2 602 8 HOH HOH . H 4 HOH B 3 603 113 HOH HOH . H 4 HOH B 4 604 141 HOH HOH . H 4 HOH B 5 605 118 HOH HOH . H 4 HOH B 6 606 28 HOH HOH . H 4 HOH B 7 607 70 HOH HOH . H 4 HOH B 8 608 61 HOH HOH . H 4 HOH B 9 609 59 HOH HOH . H 4 HOH B 10 610 10 HOH HOH . H 4 HOH B 11 611 34 HOH HOH . H 4 HOH B 12 612 128 HOH HOH . H 4 HOH B 13 613 40 HOH HOH . H 4 HOH B 14 614 39 HOH HOH . H 4 HOH B 15 615 16 HOH HOH . H 4 HOH B 16 616 64 HOH HOH . H 4 HOH B 17 617 14 HOH HOH . H 4 HOH B 18 618 68 HOH HOH . H 4 HOH B 19 619 140 HOH HOH . H 4 HOH B 20 620 35 HOH HOH . H 4 HOH B 21 621 106 HOH HOH . H 4 HOH B 22 622 72 HOH HOH . H 4 HOH B 23 623 156 HOH HOH . H 4 HOH B 24 624 120 HOH HOH . H 4 HOH B 25 625 69 HOH HOH . H 4 HOH B 26 626 42 HOH HOH . H 4 HOH B 27 627 21 HOH HOH . H 4 HOH B 28 628 157 HOH HOH . H 4 HOH B 29 629 5 HOH HOH . H 4 HOH B 30 630 4 HOH HOH . H 4 HOH B 31 631 142 HOH HOH . H 4 HOH B 32 632 31 HOH HOH . H 4 HOH B 33 633 38 HOH HOH . H 4 HOH B 34 634 78 HOH HOH . H 4 HOH B 35 635 80 HOH HOH . H 4 HOH B 36 636 129 HOH HOH . H 4 HOH B 37 637 41 HOH HOH . H 4 HOH B 38 638 127 HOH HOH . H 4 HOH B 39 639 71 HOH HOH . H 4 HOH B 40 640 67 HOH HOH . H 4 HOH B 41 641 133 HOH HOH . H 4 HOH B 42 642 135 HOH HOH . H 4 HOH B 43 643 131 HOH HOH . H 4 HOH B 44 644 24 HOH HOH . H 4 HOH B 45 645 7 HOH HOH . H 4 HOH B 46 646 62 HOH HOH . H 4 HOH B 47 647 107 HOH HOH . H 4 HOH B 48 648 33 HOH HOH . H 4 HOH B 49 649 23 HOH HOH . H 4 HOH B 50 650 20 HOH HOH . H 4 HOH B 51 651 143 HOH HOH . H 4 HOH B 52 652 18 HOH HOH . H 4 HOH B 53 653 65 HOH HOH . H 4 HOH B 54 654 144 HOH HOH . H 4 HOH B 55 655 132 HOH HOH . H 4 HOH B 56 656 63 HOH HOH . H 4 HOH B 57 657 60 HOH HOH . H 4 HOH B 58 658 13 HOH HOH . H 4 HOH B 59 659 137 HOH HOH . H 4 HOH B 60 660 37 HOH HOH . H 4 HOH B 61 661 138 HOH HOH . H 4 HOH B 62 662 154 HOH HOH . H 4 HOH B 63 663 1 HOH HOH . H 4 HOH B 64 664 3 HOH HOH . H 4 HOH B 65 665 155 HOH HOH . H 4 HOH B 66 666 136 HOH HOH . H 4 HOH B 67 667 32 HOH HOH . H 4 HOH B 68 668 30 HOH HOH . H 4 HOH B 69 669 163 HOH HOH . H 4 HOH B 70 670 9 HOH HOH . H 4 HOH B 71 671 105 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 -29.244 15.865 -14.264 1 44.85 ? PA NAP 501 A 1 HETATM 2 O O1A NAP . . . C 2 -29.079 14.449 -13.771 1 44.79 ? O1A NAP 501 A 1 HETATM 3 O O2A NAP . . . C 2 -29.449 16.146 -15.727 1 44.13 ? O2A NAP 501 A 1 HETATM 4 O O5B NAP . . . C 2 -27.952 16.699 -13.787 1 45.31 ? O5B NAP 501 A 1 HETATM 5 C C5B NAP . . . C 2 -27.746 16.945 -12.399 1 45.05 ? C5B NAP 501 A 1 HETATM 6 C C4B NAP . . . C 2 -26.267 17.106 -12.057 1 44.9 ? C4B NAP 501 A 1 HETATM 7 O O4B NAP . . . C 2 -25.666 15.834 -11.765 1 45.29 ? O4B NAP 501 A 1 HETATM 8 C C3B NAP . . . C 2 -25.402 17.724 -13.147 1 44.5 ? C3B NAP 501 A 1 HETATM 9 O O3B NAP . . . C 2 -25.444 19.152 -13.13 1 43.61 ? O3B NAP 501 A 1 HETATM 10 C C2B NAP . . . C 2 -24.037 17.165 -12.81 1 45.16 ? C2B NAP 501 A 1 HETATM 11 O O2B NAP . . . C 2 -23.449 17.82 -11.681 1 46.35 ? O2B NAP 501 A 1 HETATM 12 C C1B NAP . . . C 2 -24.379 15.75 -12.389 1 45.32 ? C1B NAP 501 A 1 HETATM 13 N N9A NAP . . . C 2 -24.452 14.834 -13.555 1 46.07 ? N9A NAP 501 A 1 HETATM 14 C C8A NAP . . . C 2 -25.562 14.199 -13.983 1 46.15 ? C8A NAP 501 A 1 HETATM 15 N N7A NAP . . . C 2 -25.291 13.435 -15.069 1 47.37 ? N7A NAP 501 A 1 HETATM 16 C C5A NAP . . . C 2 -23.986 13.572 -15.35 1 46.43 ? C5A NAP 501 A 1 HETATM 17 C C6A NAP . . . C 2 -23.055 13.034 -16.366 1 46.42 ? C6A NAP 501 A 1 HETATM 18 N N6A NAP . . . C 2 -23.494 12.179 -17.317 1 46.77 ? N6A NAP 501 A 1 HETATM 19 N N1A NAP . . . C 2 -21.763 13.432 -16.31 1 46.43 ? N1A NAP 501 A 1 HETATM 20 C C2A NAP . . . C 2 -21.318 14.288 -15.363 1 46.45 ? C2A NAP 501 A 1 HETATM 21 N N3A NAP . . . C 2 -22.116 14.809 -14.409 1 45.71 ? N3A NAP 501 A 1 HETATM 22 C C4A NAP . . . C 2 -23.433 14.495 -14.348 1 46.3 ? C4A NAP 501 A 1 HETATM 23 O O3 NAP . . . C 2 -30.479 16.482 -13.434 1 45.86 ? O3 NAP 501 A 1 HETATM 24 P PN NAP . . . C 2 -31.049 17.975 -13.638 1 46.05 ? PN NAP 501 A 1 HETATM 25 O O1N NAP . . . C 2 -31.79 18.327 -12.372 1 45.51 ? O1N NAP 501 A 1 HETATM 26 O O2N NAP . . . C 2 -29.941 18.849 -14.175 1 45.04 ? O2N NAP 501 A 1 HETATM 27 O O5D NAP . . . C 2 -32.166 17.808 -14.78 1 46.24 ? O5D NAP 501 A 1 HETATM 28 C C5D NAP . . . C 2 -32.041 18.473 -16.031 1 46.64 ? C5D NAP 501 A 1 HETATM 29 C C4D NAP . . . C 2 -33.157 17.987 -16.943 1 47.13 ? C4D NAP 501 A 1 HETATM 30 O O4D NAP . . . C 2 -33.142 16.554 -16.998 1 45.8 ? O4D NAP 501 A 1 HETATM 31 C C3D NAP . . . C 2 -34.533 18.416 -16.447 1 47 ? C3D NAP 501 A 1 HETATM 32 O O3D NAP . . . C 2 -35.225 19.108 -17.491 1 47.05 ? O3D NAP 501 A 1 HETATM 33 C C2D NAP . . . C 2 -35.246 17.129 -16.075 1 47 ? C2D NAP 501 A 1 HETATM 34 O O2D NAP . . . C 2 -36.619 17.155 -16.471 1 46.1 ? O2D NAP 501 A 1 HETATM 35 C C1D NAP . . . C 2 -34.468 16.048 -16.826 1 47.25 ? C1D NAP 501 A 1 HETATM 36 N N1N NAP . . . C 2 -34.448 14.717 -16.184 1 48.95 ? N1N NAP 501 A 1 HETATM 37 C C2N NAP . . . C 2 -34.597 13.648 -16.986 1 50.39 ? C2N NAP 501 A 1 HETATM 38 C C3N NAP . . . C 2 -34.593 12.346 -16.487 1 51.36 ? C3N NAP 501 A 1 HETATM 39 C C7N NAP . . . C 2 -34.753 11.168 -17.412 1 51.92 ? C7N NAP 501 A 1 HETATM 40 O O7N NAP . . . C 2 -34.242 10.103 -17.101 1 54.36 ? O7N NAP 501 A 1 HETATM 41 N N7N NAP . . . C 2 -35.433 11.288 -18.555 1 50.59 ? N7N NAP 501 A 1 HETATM 42 C C4N NAP . . . C 2 -34.42 12.157 -15.119 1 51.35 ? C4N NAP 501 A 1 HETATM 43 C C5N NAP . . . C 2 -34.263 13.272 -14.3 1 50.55 ? C5N NAP 501 A 1 HETATM 44 C C6N NAP . . . C 2 -34.278 14.548 -14.857 1 49.71 ? C6N NAP 501 A 1 HETATM 45 P P2B NAP . . . C 2 -22.514 19.131 -11.764 1 45.74 ? P2B NAP 501 A 1 HETATM 46 O O1X NAP . . . C 2 -23.463 20.255 -12.09 1 47.02 ? O1X NAP 501 A 1 HETATM 47 O O2X NAP . . . C 2 -21.924 19.219 -10.376 1 47.48 ? O2X NAP 501 A 1 HETATM 48 O O3X NAP . . . C 2 -21.515 18.841 -12.855 1 46.26 ? O3X NAP 501 A 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 257 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 48 #