data_4H4Y # _model_server_result.job_id KSqPvFEdqp8S-mYC1-JzCw _model_server_result.datetime_utc '2024-10-19 17:29:23' _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 4h4y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 4H4Y # _exptl.entry_id 4H4Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 4 _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 120 _cell.entry_id 4H4Y _cell.length_a 97.934 _cell.length_b 97.934 _cell.length_c 171.733 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4H4Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M _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' 10_444 -y-1,-x-1,-z-1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 -48.967 -84.813332 -28.622167 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 345 n n PA O2A NAP sing 346 n n PA O5B NAP sing 347 n n PA O3 NAP sing 348 n n O2A HOA2 NAP sing 349 n n O5B C5B NAP sing 350 n n C5B C4B NAP sing 351 n n C5B H51A NAP sing 352 n n C5B H52A NAP sing 353 n n C4B O4B NAP sing 354 n n C4B C3B NAP sing 355 n n C4B H4B NAP sing 356 n n O4B C1B NAP sing 357 n n C3B O3B NAP sing 358 n n C3B C2B NAP sing 359 n n C3B H3B NAP sing 360 n n O3B HO3A NAP sing 361 n n C2B O2B NAP sing 362 n n C2B C1B NAP sing 363 n n C2B H2B NAP sing 364 n n O2B P2B NAP sing 365 n n C1B N9A NAP sing 366 n n C1B H1B NAP sing 367 n n N9A C8A NAP sing 368 n y N9A C4A NAP sing 369 n y C8A N7A NAP doub 370 n y C8A H8A NAP sing 371 n n N7A C5A NAP sing 372 n y C5A C6A NAP sing 373 n y C5A C4A NAP doub 374 n y C6A N6A NAP sing 375 n n C6A N1A NAP doub 376 n y N6A H61A NAP sing 377 n n N6A H62A NAP sing 378 n n N1A C2A NAP sing 379 n y C2A N3A NAP doub 380 n y C2A H2A NAP sing 381 n n N3A C4A NAP sing 382 n y O3 PN NAP sing 383 n n PN O1N NAP doub 384 n n PN O2N NAP sing 385 n n PN O5D NAP sing 386 n n O5D C5D NAP sing 387 n n C5D C4D NAP sing 388 n n C5D H51N NAP sing 389 n n C5D H52N NAP sing 390 n n C4D O4D NAP sing 391 n n C4D C3D NAP sing 392 n n C4D H4D NAP sing 393 n n O4D C1D NAP sing 394 n n C3D O3D NAP sing 395 n n C3D C2D NAP sing 396 n n C3D H3D NAP sing 397 n n O3D HO3N NAP sing 398 n n C2D O2D NAP sing 399 n n C2D C1D NAP sing 400 n n C2D H2D NAP sing 401 n n O2D HO2N NAP sing 402 n n C1D N1N NAP sing 403 n n C1D H1D NAP sing 404 n n N1N C2N NAP sing 405 n y N1N C6N NAP doub 406 n y C2N C3N NAP doub 407 n y C2N H2N NAP sing 408 n n C3N C7N NAP sing 409 n n C3N C4N NAP sing 410 n y C7N O7N NAP doub 411 n n C7N N7N NAP sing 412 n n N7N H71N NAP sing 413 n n N7N H72N NAP sing 414 n n C4N C5N NAP doub 415 n y C4N H4N NAP sing 416 n n C5N C6N NAP sing 417 n y C5N H5N NAP sing 418 n n C6N H6N NAP sing 419 n n P2B O1X NAP doub 420 n n P2B O2X NAP sing 421 n n P2B O3X NAP sing 422 n n O2X HOP2 NAP sing 423 n n O3X HOP3 NAP sing 424 n n # _atom_sites.entry_id 4H4Y _atom_sites.fract_transf_matrix[1][1] 0.010211 _atom_sites.fract_transf_matrix[1][2] 0.005895 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011791 _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] 0.005823 _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 1 501 449 FAD FAD . C 3 GOL A 1 502 1 GOL GOL . D 4 NAP A 1 503 500 NAP NAQ . E 5 FMT A 1 504 1 FMT FMT . F 5 FMT A 1 505 2 FMT FMT . G 5 FMT A 1 506 3 FMT FMT . H 5 FMT A 1 507 4 FMT FMT . I 5 FMT A 1 508 5 FMT FMT . J 5 FMT A 1 509 6 FMT FMT . K 5 FMT A 1 510 7 FMT FMT . L 5 FMT A 1 511 8 FMT FMT . M 6 HOH A 1 601 1 HOH HOH . M 6 HOH A 2 602 2 HOH HOH . M 6 HOH A 3 603 3 HOH HOH . M 6 HOH A 4 604 4 HOH HOH . M 6 HOH A 5 605 5 HOH HOH . M 6 HOH A 6 606 6 HOH HOH . M 6 HOH A 7 607 7 HOH HOH . M 6 HOH A 8 608 8 HOH HOH . M 6 HOH A 9 609 9 HOH HOH . M 6 HOH A 10 610 10 HOH HOH . M 6 HOH A 11 611 11 HOH HOH . M 6 HOH A 12 612 12 HOH HOH . M 6 HOH A 13 613 13 HOH HOH . M 6 HOH A 14 614 14 HOH HOH . M 6 HOH A 15 615 15 HOH HOH . M 6 HOH A 16 616 16 HOH HOH . M 6 HOH A 17 617 17 HOH HOH . M 6 HOH A 18 618 18 HOH HOH . M 6 HOH A 19 619 19 HOH HOH . M 6 HOH A 20 620 20 HOH HOH . M 6 HOH A 21 621 22 HOH HOH . M 6 HOH A 22 622 23 HOH HOH . M 6 HOH A 23 623 24 HOH HOH . M 6 HOH A 24 624 25 HOH HOH . M 6 HOH A 25 625 26 HOH HOH . M 6 HOH A 26 626 27 HOH HOH . M 6 HOH A 27 627 28 HOH HOH . M 6 HOH A 28 628 29 HOH HOH . M 6 HOH A 29 629 30 HOH HOH . M 6 HOH A 30 630 31 HOH HOH . M 6 HOH A 31 631 32 HOH HOH . M 6 HOH A 32 632 33 HOH HOH . M 6 HOH A 33 633 34 HOH HOH . M 6 HOH A 34 634 36 HOH HOH . M 6 HOH A 35 635 37 HOH HOH . M 6 HOH A 36 636 38 HOH HOH . M 6 HOH A 37 637 40 HOH HOH . M 6 HOH A 38 638 41 HOH HOH . M 6 HOH A 39 639 42 HOH HOH . M 6 HOH A 40 640 43 HOH HOH . M 6 HOH A 41 641 44 HOH HOH . M 6 HOH A 42 642 45 HOH HOH . M 6 HOH A 43 643 46 HOH HOH . M 6 HOH A 44 644 47 HOH HOH . M 6 HOH A 45 645 48 HOH HOH . M 6 HOH A 46 646 49 HOH HOH . M 6 HOH A 47 647 50 HOH HOH . M 6 HOH A 48 648 51 HOH HOH . M 6 HOH A 49 649 52 HOH HOH . M 6 HOH A 50 650 53 HOH HOH . M 6 HOH A 51 651 54 HOH HOH . M 6 HOH A 52 652 55 HOH HOH . M 6 HOH A 53 653 56 HOH HOH . M 6 HOH A 54 654 57 HOH HOH . M 6 HOH A 55 655 58 HOH HOH . M 6 HOH A 56 656 59 HOH HOH . M 6 HOH A 57 657 60 HOH HOH . M 6 HOH A 58 658 61 HOH HOH . M 6 HOH A 59 659 62 HOH HOH . M 6 HOH A 60 660 63 HOH HOH . M 6 HOH A 61 661 64 HOH HOH . M 6 HOH A 62 662 65 HOH HOH . M 6 HOH A 63 663 66 HOH HOH . M 6 HOH A 64 664 67 HOH HOH . M 6 HOH A 65 665 68 HOH HOH . M 6 HOH A 66 666 69 HOH HOH . M 6 HOH A 67 667 70 HOH HOH . M 6 HOH A 68 668 71 HOH HOH . M 6 HOH A 69 669 72 HOH HOH . M 6 HOH A 70 670 73 HOH HOH . M 6 HOH A 71 671 74 HOH HOH . M 6 HOH A 72 672 75 HOH HOH . M 6 HOH A 73 673 77 HOH HOH . M 6 HOH A 74 674 78 HOH HOH . M 6 HOH A 75 675 79 HOH HOH . M 6 HOH A 76 676 80 HOH HOH . M 6 HOH A 77 677 81 HOH HOH . M 6 HOH A 78 678 82 HOH HOH . M 6 HOH A 79 679 83 HOH HOH . M 6 HOH A 80 680 84 HOH HOH . M 6 HOH A 81 681 85 HOH HOH . M 6 HOH A 82 682 86 HOH HOH . M 6 HOH A 83 683 87 HOH HOH . M 6 HOH A 84 684 88 HOH HOH . M 6 HOH A 85 685 89 HOH HOH . M 6 HOH A 86 686 90 HOH HOH . M 6 HOH A 87 687 91 HOH HOH . M 6 HOH A 88 688 92 HOH HOH . M 6 HOH A 89 689 93 HOH HOH . M 6 HOH A 90 690 94 HOH HOH . M 6 HOH A 91 691 95 HOH HOH . M 6 HOH A 92 692 96 HOH HOH . M 6 HOH A 93 693 97 HOH HOH . M 6 HOH A 94 694 98 HOH HOH . M 6 HOH A 95 695 99 HOH HOH . M 6 HOH A 96 696 100 HOH HOH . M 6 HOH A 97 697 101 HOH HOH . M 6 HOH A 98 698 102 HOH HOH . M 6 HOH A 99 699 103 HOH HOH . M 6 HOH A 100 700 104 HOH HOH . M 6 HOH A 101 701 105 HOH HOH . M 6 HOH A 102 702 106 HOH HOH . M 6 HOH A 103 703 107 HOH HOH . M 6 HOH A 104 704 108 HOH HOH . M 6 HOH A 105 705 109 HOH HOH . M 6 HOH A 106 706 110 HOH HOH . M 6 HOH A 107 707 111 HOH HOH . M 6 HOH A 108 708 112 HOH HOH . M 6 HOH A 109 709 113 HOH HOH . M 6 HOH A 110 710 114 HOH HOH . M 6 HOH A 111 711 115 HOH HOH . M 6 HOH A 112 712 116 HOH HOH . M 6 HOH A 113 713 118 HOH HOH . M 6 HOH A 114 714 119 HOH HOH . M 6 HOH A 115 715 120 HOH HOH . M 6 HOH A 116 716 121 HOH HOH . M 6 HOH A 117 717 122 HOH HOH . M 6 HOH A 118 718 123 HOH HOH . M 6 HOH A 119 719 124 HOH HOH . M 6 HOH A 120 720 125 HOH HOH . M 6 HOH A 121 721 126 HOH HOH . M 6 HOH A 122 722 127 HOH HOH . M 6 HOH A 123 723 128 HOH HOH . M 6 HOH A 124 724 129 HOH HOH . M 6 HOH A 125 725 130 HOH HOH . M 6 HOH A 126 726 131 HOH HOH . M 6 HOH A 127 727 132 HOH HOH . M 6 HOH A 128 728 133 HOH HOH . M 6 HOH A 129 729 134 HOH HOH . M 6 HOH A 130 730 135 HOH HOH . M 6 HOH A 131 731 136 HOH HOH . M 6 HOH A 132 732 137 HOH HOH . M 6 HOH A 133 733 138 HOH HOH . M 6 HOH A 134 734 139 HOH HOH . M 6 HOH A 135 735 141 HOH HOH . M 6 HOH A 136 736 142 HOH HOH . M 6 HOH A 137 737 143 HOH HOH . M 6 HOH A 138 738 144 HOH HOH . M 6 HOH A 139 739 145 HOH HOH . M 6 HOH A 140 740 146 HOH HOH . M 6 HOH A 141 741 147 HOH HOH . M 6 HOH A 142 742 148 HOH HOH . M 6 HOH A 143 743 149 HOH HOH . M 6 HOH A 144 744 150 HOH HOH . M 6 HOH A 145 745 151 HOH HOH . M 6 HOH A 146 746 152 HOH HOH . M 6 HOH A 147 747 153 HOH HOH . M 6 HOH A 148 748 154 HOH HOH . M 6 HOH A 149 749 155 HOH HOH . M 6 HOH A 150 750 156 HOH HOH . M 6 HOH A 151 751 157 HOH HOH . M 6 HOH A 152 752 158 HOH HOH . M 6 HOH A 153 753 159 HOH HOH . M 6 HOH A 154 754 160 HOH HOH . M 6 HOH A 155 755 161 HOH HOH . M 6 HOH A 156 756 164 HOH HOH . M 6 HOH A 157 757 165 HOH HOH . M 6 HOH A 158 758 166 HOH HOH . M 6 HOH A 159 759 167 HOH HOH . M 6 HOH A 160 760 168 HOH HOH . M 6 HOH A 161 761 169 HOH HOH . M 6 HOH A 162 762 171 HOH HOH . M 6 HOH A 163 763 172 HOH HOH . M 6 HOH A 164 764 173 HOH HOH . M 6 HOH A 165 765 174 HOH HOH . M 6 HOH A 166 766 175 HOH HOH . M 6 HOH A 167 767 176 HOH HOH . M 6 HOH A 168 768 177 HOH HOH . M 6 HOH A 169 769 179 HOH HOH . M 6 HOH A 170 770 180 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 . . . D 4 -26.027 -23.12 -11.385 0.6 34.5 ? PA NAP 503 A 1 HETATM 2 O O1A NAP . . . D 4 -25.817 -22.35 -12.659 0.6 29.73 ? O1A NAP 503 A 1 HETATM 3 O O2A NAP . . . D 4 -26.918 -24.247 -11.64 0.6 34.98 ? O2A NAP 503 A 1 HETATM 4 O O5B NAP . . . D 4 -24.668 -23.706 -10.858 0.6 31.82 ? O5B NAP 503 A 1 HETATM 5 C C5B NAP . . . D 4 -24.653 -24.726 -9.792 0.6 28.09 ? C5B NAP 503 A 1 HETATM 6 C C4B NAP . . . D 4 -23.436 -25.377 -9.469 0.6 29.64 ? C4B NAP 503 A 1 HETATM 7 O O4B NAP . . . D 4 -23.523 -25.916 -8.095 0.6 30.24 ? O4B NAP 503 A 1 HETATM 8 C C3B NAP . . . D 4 -23.202 -26.557 -10.326 0.6 35.51 ? C3B NAP 503 A 1 HETATM 9 O O3B NAP . . . D 4 -21.88 -26.8 -10.385 0.6 35.83 ? O3B NAP 503 A 1 HETATM 10 C C2B NAP . . . D 4 -23.883 -27.644 -9.61 0.6 36.85 ? C2B NAP 503 A 1 HETATM 11 O O2B NAP . . . D 4 -23.308 -28.828 -9.77 0.6 41.12 ? O2B NAP 503 A 1 HETATM 12 C C1B NAP . . . D 4 -23.62 -27.31 -8.18 0.6 35.69 ? C1B NAP 503 A 1 HETATM 13 N N9A NAP . . . D 4 -24.626 -27.907 -7.338 0.6 34.44 ? N9A NAP 503 A 1 HETATM 14 C C8A NAP . . . D 4 -25.939 -27.965 -7.602 0.6 31.59 ? C8A NAP 503 A 1 HETATM 15 N N7A NAP . . . D 4 -26.557 -28.6 -6.594 0.6 33.11 ? N7A NAP 503 A 1 HETATM 16 C C5A NAP . . . D 4 -25.633 -28.969 -5.675 0.6 33.59 ? C5A NAP 503 A 1 HETATM 17 C C6A NAP . . . D 4 -25.677 -29.642 -4.45 0.6 35.61 ? C6A NAP 503 A 1 HETATM 18 N N6A NAP . . . D 4 -26.965 -30.115 -3.927 0.6 33.25 ? N6A NAP 503 A 1 HETATM 19 N N1A NAP . . . D 4 -24.526 -29.851 -3.769 0.6 35.78 ? N1A NAP 503 A 1 HETATM 20 C C2A NAP . . . D 4 -23.359 -29.415 -4.256 0.6 32.08 ? C2A NAP 503 A 1 HETATM 21 N N3A NAP . . . D 4 -23.28 -28.766 -5.429 0.6 34.53 ? N3A NAP 503 A 1 HETATM 22 C C4A NAP . . . D 4 -24.401 -28.534 -6.154 0.6 34.18 ? C4A NAP 503 A 1 HETATM 23 O O3 NAP . . . D 4 -26.665 -22.199 -10.274 0.6 30.84 ? O3 NAP 503 A 1 HETATM 24 P PN NAP . . . D 4 -26.301 -20.702 -9.936 0.6 28.62 ? PN NAP 503 A 1 HETATM 25 O O1N NAP . . . D 4 -24.947 -20.292 -10.535 0.6 23.98 ? O1N NAP 503 A 1 HETATM 26 O O2N NAP . . . D 4 -26.224 -20.568 -8.381 0.6 20.34 ? O2N NAP 503 A 1 HETATM 27 O O5D NAP . . . D 4 -27.386 -19.729 -10.56 0.6 33.3 ? O5D NAP 503 A 1 HETATM 28 C C5D NAP . . . D 4 -28.805 -19.765 -10.359 0.6 27.83 ? C5D NAP 503 A 1 HETATM 29 C C4D NAP . . . D 4 -29.569 -18.508 -10.752 0.6 25.59 ? C4D NAP 503 A 1 HETATM 30 O O4D NAP . . . D 4 -28.709 -17.592 -11.338 0.6 28.41 ? O4D NAP 503 A 1 HETATM 31 C C3D NAP . . . D 4 -30.572 -18.739 -11.826 0.6 29.12 ? C3D NAP 503 A 1 HETATM 32 O O3D NAP . . . D 4 -31.445 -17.651 -11.9 0.6 28.14 ? O3D NAP 503 A 1 HETATM 33 C C2D NAP . . . D 4 -29.706 -18.733 -12.955 0.6 31.48 ? C2D NAP 503 A 1 HETATM 34 O O2D NAP . . . D 4 -30.37 -18.701 -14.135 0.6 33.21 ? O2D NAP 503 A 1 HETATM 35 C C1D NAP . . . D 4 -29.045 -17.464 -12.715 0.6 26.88 ? C1D NAP 503 A 1 HETATM 36 N N1N NAP . . . D 4 -27.947 -17.331 -13.502 0.6 26 ? N1N NAP 503 A 1 HETATM 37 P P2B NAP . . . D 4 -23.689 -29.848 -10.91 0.6 39.61 ? P2B NAP 503 A 1 HETATM 38 O O1X NAP . . . D 4 -23.575 -29.126 -12.217 0.6 35.33 ? O1X NAP 503 A 1 HETATM 39 O O2X NAP . . . D 4 -22.701 -30.965 -10.853 0.6 32.81 ? O2X NAP 503 A 1 HETATM 40 O O3X NAP . . . D 4 -25.153 -30.429 -10.738 0.6 38.07 ? O3X NAP 503 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 40 #