data_3GWD # _model_server_result.job_id a67DmDjvVTBagOvgSX6CZQ _model_server_result.datetime_utc '2024-11-17 11:37:29' _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 3gwd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":542}' # _entry.id 3GWD # _exptl.entry_id 3GWD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 3 _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 3GWD _cell.length_a 62.485 _cell.length_b 90.989 _cell.length_c 100.408 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3GWD _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 3 C N N ? 3 D 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 328 n n PA O2A NAP sing 329 n n PA O5B NAP sing 330 n n PA O3 NAP sing 331 n n O2A HOA2 NAP sing 332 n n O5B C5B NAP sing 333 n n C5B C4B NAP sing 334 n n C5B H51A NAP sing 335 n n C5B H52A NAP sing 336 n n C4B O4B NAP sing 337 n n C4B C3B NAP sing 338 n n C4B H4B NAP sing 339 n n O4B C1B NAP sing 340 n n C3B O3B NAP sing 341 n n C3B C2B NAP sing 342 n n C3B H3B NAP sing 343 n n O3B HO3A NAP sing 344 n n C2B O2B NAP sing 345 n n C2B C1B NAP sing 346 n n C2B H2B NAP sing 347 n n O2B P2B NAP sing 348 n n C1B N9A NAP sing 349 n n C1B H1B NAP sing 350 n n N9A C8A NAP sing 351 n y N9A C4A NAP sing 352 n y C8A N7A NAP doub 353 n y C8A H8A NAP sing 354 n n N7A C5A NAP sing 355 n y C5A C6A NAP sing 356 n y C5A C4A NAP doub 357 n y C6A N6A NAP sing 358 n n C6A N1A NAP doub 359 n y N6A H61A NAP sing 360 n n N6A H62A NAP sing 361 n n N1A C2A NAP sing 362 n y C2A N3A NAP doub 363 n y C2A H2A NAP sing 364 n n N3A C4A NAP sing 365 n y O3 PN NAP sing 366 n n PN O1N NAP doub 367 n n PN O2N NAP sing 368 n n PN O5D NAP sing 369 n n O5D C5D NAP sing 370 n n C5D C4D NAP sing 371 n n C5D H51N NAP sing 372 n n C5D H52N NAP sing 373 n n C4D O4D NAP sing 374 n n C4D C3D NAP sing 375 n n C4D H4D NAP sing 376 n n O4D C1D NAP sing 377 n n C3D O3D NAP sing 378 n n C3D C2D NAP sing 379 n n C3D H3D NAP sing 380 n n O3D HO3N NAP sing 381 n n C2D O2D NAP sing 382 n n C2D C1D NAP sing 383 n n C2D H2D NAP sing 384 n n O2D HO2N NAP sing 385 n n C1D N1N NAP sing 386 n n C1D H1D NAP sing 387 n n N1N C2N NAP sing 388 n y N1N C6N NAP doub 389 n y C2N C3N NAP doub 390 n y C2N H2N NAP sing 391 n n C3N C7N NAP sing 392 n n C3N C4N NAP sing 393 n y C7N O7N NAP doub 394 n n C7N N7N NAP sing 395 n n N7N H71N NAP sing 396 n n N7N H72N NAP sing 397 n n C4N C5N NAP doub 398 n y C4N H4N NAP sing 399 n n C5N C6N NAP sing 400 n y C5N H5N NAP sing 401 n n C6N H6N NAP sing 402 n n P2B O1X NAP doub 403 n n P2B O2X NAP sing 404 n n P2B O3X NAP sing 405 n n O2X HOP2 NAP sing 406 n n O3X HOP3 NAP sing 407 n n # _atom_sites.entry_id 3GWD _atom_sites.fract_transf_matrix[1][1] 0.016004 _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] 0.01099 _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] 0.009959 _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 FAD A 1 541 541 FAD FAD . C 3 NAP A 1 542 542 NAP NAP . D 3 NAP A 1 543 542 NAP NAP . E 4 HOH A 1 544 544 HOH HOH . E 4 HOH A 2 545 545 HOH HOH . E 4 HOH A 3 546 546 HOH HOH . E 4 HOH A 4 547 547 HOH HOH . E 4 HOH A 5 548 548 HOH HOH . E 4 HOH A 6 549 549 HOH HOH . E 4 HOH A 7 550 550 HOH HOH . E 4 HOH A 8 551 551 HOH HOH . E 4 HOH A 9 552 552 HOH HOH . E 4 HOH A 10 553 553 HOH HOH . E 4 HOH A 11 554 554 HOH HOH . E 4 HOH A 12 555 555 HOH HOH . E 4 HOH A 13 556 556 HOH HOH . E 4 HOH A 14 557 557 HOH HOH . E 4 HOH A 15 558 558 HOH HOH . E 4 HOH A 16 559 559 HOH HOH . E 4 HOH A 17 560 560 HOH HOH . E 4 HOH A 18 561 561 HOH HOH . E 4 HOH A 19 562 562 HOH HOH . E 4 HOH A 20 563 563 HOH HOH . E 4 HOH A 21 564 564 HOH HOH . E 4 HOH A 22 565 565 HOH HOH . E 4 HOH A 23 566 566 HOH HOH . E 4 HOH A 24 567 567 HOH HOH . E 4 HOH A 25 568 568 HOH HOH . E 4 HOH A 26 569 569 HOH HOH . E 4 HOH A 27 570 570 HOH HOH . E 4 HOH A 28 571 571 HOH HOH . E 4 HOH A 29 572 572 HOH HOH . E 4 HOH A 30 573 573 HOH HOH . E 4 HOH A 31 574 574 HOH HOH . E 4 HOH A 32 575 575 HOH HOH . E 4 HOH A 33 576 576 HOH HOH . E 4 HOH A 34 577 577 HOH HOH . E 4 HOH A 35 578 578 HOH HOH . E 4 HOH A 36 579 579 HOH HOH . E 4 HOH A 37 580 580 HOH HOH . E 4 HOH A 38 581 581 HOH HOH . E 4 HOH A 39 582 582 HOH HOH . E 4 HOH A 40 583 583 HOH HOH . E 4 HOH A 41 584 584 HOH HOH . E 4 HOH A 42 585 585 HOH HOH . E 4 HOH A 43 586 586 HOH HOH . E 4 HOH A 44 587 587 HOH HOH . E 4 HOH A 45 588 588 HOH HOH . E 4 HOH A 46 589 589 HOH HOH . E 4 HOH A 47 590 590 HOH HOH . E 4 HOH A 48 591 591 HOH HOH . E 4 HOH A 49 592 592 HOH HOH . E 4 HOH A 50 593 593 HOH HOH . E 4 HOH A 51 594 594 HOH HOH . E 4 HOH A 52 595 595 HOH HOH . E 4 HOH A 53 596 596 HOH HOH . E 4 HOH A 54 597 597 HOH HOH . E 4 HOH A 55 598 598 HOH HOH . E 4 HOH A 56 599 599 HOH HOH . E 4 HOH A 57 600 600 HOH HOH . E 4 HOH A 58 601 601 HOH HOH . E 4 HOH A 59 602 602 HOH HOH . E 4 HOH A 60 603 603 HOH HOH . E 4 HOH A 61 604 604 HOH HOH . E 4 HOH A 62 605 605 HOH HOH . E 4 HOH A 63 606 606 HOH HOH . E 4 HOH A 64 607 607 HOH HOH . E 4 HOH A 65 608 608 HOH HOH . E 4 HOH A 66 609 609 HOH HOH . E 4 HOH A 67 610 610 HOH HOH . E 4 HOH A 68 611 611 HOH HOH . E 4 HOH A 69 612 612 HOH HOH . E 4 HOH A 70 613 613 HOH HOH . E 4 HOH A 71 614 614 HOH HOH . E 4 HOH A 72 615 615 HOH HOH . E 4 HOH A 73 616 616 HOH HOH . E 4 HOH A 74 617 617 HOH HOH . E 4 HOH A 75 618 618 HOH HOH . E 4 HOH A 76 619 619 HOH HOH . E 4 HOH A 77 620 620 HOH HOH . E 4 HOH A 78 621 621 HOH HOH . E 4 HOH A 79 622 622 HOH HOH . E 4 HOH A 80 623 623 HOH HOH . E 4 HOH A 81 624 624 HOH HOH . E 4 HOH A 82 625 625 HOH HOH . E 4 HOH A 83 626 626 HOH HOH . E 4 HOH A 84 627 627 HOH HOH . E 4 HOH A 85 628 628 HOH HOH . E 4 HOH A 86 629 629 HOH HOH . E 4 HOH A 87 630 630 HOH HOH . E 4 HOH A 88 631 631 HOH HOH . E 4 HOH A 89 632 632 HOH HOH . E 4 HOH A 90 633 633 HOH HOH . E 4 HOH A 91 634 634 HOH HOH . E 4 HOH A 92 635 635 HOH HOH . E 4 HOH A 93 636 636 HOH HOH . E 4 HOH A 94 637 637 HOH HOH . E 4 HOH A 95 638 638 HOH HOH . E 4 HOH A 96 639 639 HOH HOH . E 4 HOH A 97 640 640 HOH HOH . E 4 HOH A 98 641 641 HOH HOH . E 4 HOH A 99 643 643 HOH HOH . E 4 HOH A 100 644 644 HOH HOH . E 4 HOH A 101 645 645 HOH HOH . E 4 HOH A 102 646 646 HOH HOH . E 4 HOH A 103 647 647 HOH HOH . E 4 HOH A 104 648 648 HOH HOH . E 4 HOH A 105 649 649 HOH HOH . E 4 HOH A 106 650 650 HOH HOH . E 4 HOH A 107 651 651 HOH HOH . E 4 HOH A 108 652 652 HOH HOH . E 4 HOH A 109 653 653 HOH HOH . E 4 HOH A 110 654 654 HOH HOH . E 4 HOH A 111 655 655 HOH HOH . E 4 HOH A 112 656 656 HOH HOH . E 4 HOH A 113 657 657 HOH HOH . E 4 HOH A 114 658 658 HOH HOH . E 4 HOH A 115 659 659 HOH HOH . E 4 HOH A 116 660 660 HOH HOH . E 4 HOH A 117 661 661 HOH HOH . E 4 HOH A 118 662 662 HOH HOH . E 4 HOH A 119 663 663 HOH HOH . E 4 HOH A 120 664 664 HOH HOH . E 4 HOH A 121 665 665 HOH HOH . E 4 HOH A 122 666 666 HOH HOH . E 4 HOH A 123 667 667 HOH HOH . E 4 HOH A 124 668 668 HOH HOH . E 4 HOH A 125 669 669 HOH HOH . E 4 HOH A 126 670 670 HOH HOH . E 4 HOH A 127 671 671 HOH HOH . E 4 HOH A 128 672 672 HOH HOH . E 4 HOH A 129 673 673 HOH HOH . E 4 HOH A 130 674 674 HOH HOH . E 4 HOH A 131 675 675 HOH HOH . E 4 HOH A 132 676 676 HOH HOH . E 4 HOH A 133 677 677 HOH HOH . E 4 HOH A 134 678 678 HOH HOH . E 4 HOH A 135 679 679 HOH HOH . E 4 HOH A 136 680 680 HOH HOH . E 4 HOH A 137 681 681 HOH HOH . E 4 HOH A 138 682 682 HOH HOH . E 4 HOH A 139 685 685 HOH HOH . E 4 HOH A 140 687 687 HOH HOH . E 4 HOH A 141 688 688 HOH HOH . E 4 HOH A 142 689 689 HOH HOH . E 4 HOH A 143 690 690 HOH HOH . E 4 HOH A 144 691 691 HOH HOH . E 4 HOH A 145 692 692 HOH HOH . E 4 HOH A 146 693 693 HOH HOH . E 4 HOH A 147 694 694 HOH HOH . E 4 HOH A 148 695 695 HOH HOH . E 4 HOH A 149 696 696 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 3 -13.411 -6.972 16.463 1 27.75 ? PA NAP 542 A 1 HETATM 2 O O1A NAP . . . C 3 -13.652 -5.905 17.48 1 27.53 ? O1A NAP 542 A 1 HETATM 3 O O2A NAP . . . C 3 -14.65 -7.509 15.882 1 23.94 ? O2A NAP 542 A 1 HETATM 4 O O5B NAP . . . C 3 -12.587 -8.236 17.062 1 26.84 ? O5B NAP 542 A 1 HETATM 5 C C5B NAP . . . C 3 -11.413 -8.064 17.8 1 27.96 ? C5B NAP 542 A 1 HETATM 6 C C4B NAP . . . C 3 -10.92 -9.379 18.369 1 28.91 ? C4B NAP 542 A 1 HETATM 7 O O4B NAP . . . C 3 -9.857 -9.056 19.249 1 29.64 ? O4B NAP 542 A 1 HETATM 8 C C3B NAP . . . C 3 -11.984 -10.066 19.225 1 30.6 ? C3B NAP 542 A 1 HETATM 9 O O3B NAP . . . C 3 -11.95 -11.48 19.03 1 29.12 ? O3B NAP 542 A 1 HETATM 10 C C2B NAP . . . C 3 -11.608 -9.633 20.637 1 29.27 ? C2B NAP 542 A 1 HETATM 11 O O2B NAP . . . C 3 -11.977 -10.547 21.633 1 29.19 ? O2B NAP 542 A 1 HETATM 12 C C1B NAP . . . C 3 -10.1 -9.554 20.556 1 28.34 ? C1B NAP 542 A 1 HETATM 13 N N9A NAP . . . C 3 -9.494 -8.734 21.633 1 27.83 ? N9A NAP 542 A 1 HETATM 14 C C8A NAP . . . C 3 -9.768 -7.428 21.964 1 29.15 ? C8A NAP 542 A 1 HETATM 15 N N7A NAP . . . C 3 -9.008 -7.049 23.023 1 29.75 ? N7A NAP 542 A 1 HETATM 16 C C5A NAP . . . C 3 -8.224 -8.098 23.37 1 29.06 ? C5A NAP 542 A 1 HETATM 17 C C6A NAP . . . C 3 -7.272 -8.292 24.372 1 28.51 ? C6A NAP 542 A 1 HETATM 18 N N6A NAP . . . C 3 -6.947 -7.331 25.215 1 27.52 ? N6A NAP 542 A 1 HETATM 19 N N1A NAP . . . C 3 -6.627 -9.504 24.488 1 28.35 ? N1A NAP 542 A 1 HETATM 20 C C2A NAP . . . C 3 -6.951 -10.529 23.635 1 28.04 ? C2A NAP 542 A 1 HETATM 21 N N3A NAP . . . C 3 -7.903 -10.351 22.658 1 28.07 ? N3A NAP 542 A 1 HETATM 22 C C4A NAP . . . C 3 -8.533 -9.159 22.513 1 28.56 ? C4A NAP 542 A 1 HETATM 23 O O3 NAP . . . C 3 -12.399 -6.307 15.378 1 25.33 ? O3 NAP 542 A 1 HETATM 24 P PN NAP . . . C 3 -12.25 -6.789 13.84 1 26.06 ? PN NAP 542 A 1 HETATM 25 O O1N NAP . . . C 3 -12.146 -8.264 13.778 1 25.9 ? O1N NAP 542 A 1 HETATM 26 O O2N NAP . . . C 3 -11.213 -5.986 13.164 1 26.82 ? O2N NAP 542 A 1 HETATM 27 O O5D NAP . . . C 3 -13.656 -6.345 13.253 1 24.11 ? O5D NAP 542 A 1 HETATM 28 C C5D NAP . . . C 3 -14.24 -5.091 13.55 1 23.15 ? C5D NAP 542 A 1 HETATM 29 C C4D NAP . . . C 3 -15.302 -4.802 12.502 1 19.44 ? C4D NAP 542 A 1 HETATM 30 O O4D NAP . . . C 3 -14.643 -4.398 11.32 1 19.09 ? O4D NAP 542 A 1 HETATM 31 C C3D NAP . . . C 3 -16.079 -6.028 12.099 1 19.1 ? C3D NAP 542 A 1 HETATM 32 O O3D NAP . . . C 3 -17.144 -6.31 12.974 1 24.01 ? O3D NAP 542 A 1 HETATM 33 C C2D NAP . . . C 3 -16.549 -5.652 10.714 1 19.54 ? C2D NAP 542 A 1 HETATM 34 O O2D NAP . . . C 3 -17.749 -4.918 10.752 1 17.93 ? O2D NAP 542 A 1 HETATM 35 C C1D NAP . . . C 3 -15.386 -4.822 10.193 1 20.8 ? C1D NAP 542 A 1 HETATM 36 N N1N NAP . . . C 3 -14.626 -5.77 9.36 1 21.73 ? N1N NAP 542 A 1 HETATM 37 C C2N NAP . . . C 3 -15.282 -6.299 8.269 1 21.19 ? C2N NAP 542 A 1 HETATM 38 C C3N NAP . . . C 3 -14.637 -7.214 7.454 1 21.76 ? C3N NAP 542 A 1 HETATM 39 C C7N NAP . . . C 3 -15.315 -7.789 6.239 1 22.37 ? C7N NAP 542 A 1 HETATM 40 O O7N NAP . . . C 3 -14.694 -8.884 5.63 1 24.97 ? O7N NAP 542 A 1 HETATM 41 N N7N NAP . . . C 3 -16.452 -7.29 5.745 1 22.7 ? N7N NAP 542 A 1 HETATM 42 C C4N NAP . . . C 3 -13.329 -7.6 7.772 1 21.48 ? C4N NAP 542 A 1 HETATM 43 C C5N NAP . . . C 3 -12.683 -7.064 8.886 1 22.53 ? C5N NAP 542 A 1 HETATM 44 C C6N NAP . . . C 3 -13.349 -6.143 9.688 1 21.5 ? C6N NAP 542 A 1 HETATM 45 P P2B NAP . . . C 3 -13.378 -10.456 22.424 1 27.51 ? P2B NAP 542 A 1 HETATM 46 O O1X NAP . . . C 3 -14.487 -10.838 21.473 1 26.82 ? O1X NAP 542 A 1 HETATM 47 O O2X NAP . . . C 3 -13.21 -11.458 23.558 1 24.74 ? O2X NAP 542 A 1 HETATM 48 O O3X NAP . . . C 3 -13.725 -9.118 22.99 1 25.88 ? O3X NAP 542 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 211 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 48 #