data_1NUS # _model_server_result.job_id ljDevzqjKqYeefJJypR0hQ _model_server_result.datetime_utc '2024-11-26 10:51:06' _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 1nus # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":502}' # _entry.id 1NUS # _exptl.entry_id 1NUS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' _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 1NUS _cell.length_a 79.036 _cell.length_b 79.036 _cell.length_c 145.987 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NUS _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,PQS _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 1,2 # 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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 H N N # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id APC _chem_comp.mon_nstd_flag . _chem_comp.name 'DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE" # 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 PG O1G APC doub 13 n n PG O2G APC sing 14 n n PG O3G APC sing 15 n n PG O3B APC sing 16 n n O2G HOG2 APC sing 17 n n O3G HOG3 APC sing 18 n n PB O1B APC doub 19 n n PB O2B APC sing 20 n n PB O3B APC sing 21 n n PB C3A APC sing 22 n n O2B HOB2 APC sing 23 n n PA O1A APC doub 24 n n PA O2A APC sing 25 n n PA C3A APC sing 26 n n PA O5' APC sing 27 n n O2A HOA2 APC sing 28 n n C3A H3A1 APC sing 29 n n C3A H3A2 APC sing 30 n n O5' C5' APC sing 31 n n C5' C4' APC sing 32 n n C5' "H5'1" APC sing 33 n n C5' "H5'2" APC sing 34 n n C4' O4' APC sing 35 n n C4' C3' APC sing 36 n n C4' H4' APC sing 37 n n O4' C1' APC sing 38 n n C3' O3' APC sing 39 n n C3' C2' APC sing 40 n n C3' H3' APC sing 41 n n O3' HO3' APC sing 42 n n C2' O2' APC sing 43 n n C2' C1' APC sing 44 n n C2' H2' APC sing 45 n n O2' HO2' APC sing 46 n n C1' N9 APC sing 47 n n C1' H1' APC sing 48 n n N9 C8 APC sing 49 n y N9 C4 APC sing 50 n y C8 N7 APC doub 51 n y C8 H8 APC sing 52 n n N7 C5 APC sing 53 n y C5 C6 APC sing 54 n y C5 C4 APC doub 55 n y C6 N6 APC sing 56 n n C6 N1 APC doub 57 n y N6 HN61 APC sing 58 n n N6 HN62 APC sing 59 n n N1 C2 APC sing 60 n y C2 N3 APC doub 61 n y C2 H2 APC sing 62 n n N3 C4 APC sing 63 n y # _atom_sites.entry_id 1NUS _atom_sites.fract_transf_matrix[1][1] 0.012652 _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] 0.012652 _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] 0.00685 _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 SO4 A 1 301 501 SO4 SO4 . D 3 NMN A 1 401 301 NMN NMN . E 4 APC A 1 501 401 APC APC . F 2 SO4 B 1 302 502 SO4 SO4 . G 3 NMN B 1 402 302 NMN NMN . H 4 APC B 1 502 402 APC APC . I 5 HOH A 1 601 601 HOH HOH . I 5 HOH A 2 602 602 HOH HOH . I 5 HOH A 3 603 603 HOH HOH . I 5 HOH A 4 604 604 HOH HOH . I 5 HOH A 5 605 605 HOH HOH . I 5 HOH A 6 606 606 HOH HOH . I 5 HOH A 7 607 607 HOH HOH . I 5 HOH A 8 608 608 HOH HOH . I 5 HOH A 9 610 610 HOH HOH . I 5 HOH A 10 611 611 HOH HOH . I 5 HOH A 11 612 612 HOH HOH . I 5 HOH A 12 613 613 HOH HOH . I 5 HOH A 13 614 614 HOH HOH . I 5 HOH A 14 615 615 HOH HOH . I 5 HOH A 15 616 616 HOH HOH . I 5 HOH A 16 617 617 HOH HOH . I 5 HOH A 17 619 619 HOH HOH . I 5 HOH A 18 623 623 HOH HOH . I 5 HOH A 19 624 624 HOH HOH . I 5 HOH A 20 626 626 HOH HOH . I 5 HOH A 21 629 629 HOH HOH . I 5 HOH A 22 630 630 HOH HOH . I 5 HOH A 23 631 631 HOH HOH . I 5 HOH A 24 633 633 HOH HOH . I 5 HOH A 25 640 640 HOH HOH . I 5 HOH A 26 641 641 HOH HOH . I 5 HOH A 27 643 643 HOH HOH . I 5 HOH A 28 644 644 HOH HOH . I 5 HOH A 29 645 645 HOH HOH . I 5 HOH A 30 646 646 HOH HOH . I 5 HOH A 31 647 647 HOH HOH . I 5 HOH A 32 649 649 HOH HOH . I 5 HOH A 33 651 651 HOH HOH . I 5 HOH A 34 652 652 HOH HOH . I 5 HOH A 35 654 654 HOH HOH . I 5 HOH A 36 657 657 HOH HOH . I 5 HOH A 37 659 659 HOH HOH . I 5 HOH A 38 664 664 HOH HOH . I 5 HOH A 39 665 665 HOH HOH . I 5 HOH A 40 670 670 HOH HOH . I 5 HOH A 41 671 671 HOH HOH . I 5 HOH A 42 672 672 HOH HOH . I 5 HOH A 43 674 674 HOH HOH . I 5 HOH A 44 676 676 HOH HOH . I 5 HOH A 45 678 678 HOH HOH . I 5 HOH A 46 679 679 HOH HOH . I 5 HOH A 47 681 681 HOH HOH . I 5 HOH A 48 682 682 HOH HOH . I 5 HOH A 49 683 683 HOH HOH . I 5 HOH A 50 685 685 HOH HOH . I 5 HOH A 51 686 686 HOH HOH . I 5 HOH A 52 691 691 HOH HOH . I 5 HOH A 53 692 692 HOH HOH . I 5 HOH A 54 693 693 HOH HOH . I 5 HOH A 55 694 694 HOH HOH . I 5 HOH A 56 695 695 HOH HOH . I 5 HOH A 57 698 698 HOH HOH . I 5 HOH A 58 699 699 HOH HOH . I 5 HOH A 59 700 700 HOH HOH . I 5 HOH A 60 701 701 HOH HOH . I 5 HOH A 61 704 704 HOH HOH . I 5 HOH A 62 708 708 HOH HOH . I 5 HOH A 63 709 709 HOH HOH . I 5 HOH A 64 710 710 HOH HOH . I 5 HOH A 65 713 713 HOH HOH . I 5 HOH A 66 714 714 HOH HOH . I 5 HOH A 67 716 716 HOH HOH . I 5 HOH A 68 717 717 HOH HOH . I 5 HOH A 69 721 721 HOH HOH . I 5 HOH A 70 723 723 HOH HOH . I 5 HOH A 71 724 724 HOH HOH . I 5 HOH A 72 726 726 HOH HOH . I 5 HOH A 73 727 727 HOH HOH . I 5 HOH A 74 728 728 HOH HOH . I 5 HOH A 75 729 729 HOH HOH . I 5 HOH A 76 730 730 HOH HOH . I 5 HOH A 77 733 733 HOH HOH . I 5 HOH A 78 734 734 HOH HOH . I 5 HOH A 79 735 735 HOH HOH . I 5 HOH A 80 736 736 HOH HOH . I 5 HOH A 81 737 737 HOH HOH . I 5 HOH A 82 739 739 HOH HOH . I 5 HOH A 83 740 740 HOH HOH . I 5 HOH A 84 741 741 HOH HOH . I 5 HOH A 85 742 742 HOH HOH . I 5 HOH A 86 743 743 HOH HOH . I 5 HOH A 87 748 748 HOH HOH . I 5 HOH A 88 749 749 HOH HOH . I 5 HOH A 89 752 752 HOH HOH . I 5 HOH A 90 754 754 HOH HOH . I 5 HOH A 91 755 755 HOH HOH . I 5 HOH A 92 757 757 HOH HOH . I 5 HOH A 93 761 761 HOH HOH . I 5 HOH A 94 762 762 HOH HOH . I 5 HOH A 95 763 763 HOH HOH . I 5 HOH A 96 764 764 HOH HOH . I 5 HOH A 97 768 768 HOH HOH . I 5 HOH A 98 769 769 HOH HOH . I 5 HOH A 99 770 770 HOH HOH . I 5 HOH A 100 773 773 HOH HOH . I 5 HOH A 101 774 774 HOH HOH . I 5 HOH A 102 775 775 HOH HOH . I 5 HOH A 103 776 776 HOH HOH . I 5 HOH A 104 777 777 HOH HOH . J 5 HOH B 1 609 609 HOH HOH . J 5 HOH B 2 618 618 HOH HOH . J 5 HOH B 3 620 620 HOH HOH . J 5 HOH B 4 621 621 HOH HOH . J 5 HOH B 5 622 622 HOH HOH . J 5 HOH B 6 625 625 HOH HOH . J 5 HOH B 7 627 627 HOH HOH . J 5 HOH B 8 628 628 HOH HOH . J 5 HOH B 9 632 632 HOH HOH . J 5 HOH B 10 634 634 HOH HOH . J 5 HOH B 11 635 635 HOH HOH . J 5 HOH B 12 636 636 HOH HOH . J 5 HOH B 13 637 637 HOH HOH . J 5 HOH B 14 638 638 HOH HOH . J 5 HOH B 15 639 639 HOH HOH . J 5 HOH B 16 642 642 HOH HOH . J 5 HOH B 17 648 648 HOH HOH . J 5 HOH B 18 650 650 HOH HOH . J 5 HOH B 19 653 653 HOH HOH . J 5 HOH B 20 655 655 HOH HOH . J 5 HOH B 21 656 656 HOH HOH . J 5 HOH B 22 658 658 HOH HOH . J 5 HOH B 23 660 660 HOH HOH . J 5 HOH B 24 661 661 HOH HOH . J 5 HOH B 25 662 662 HOH HOH . J 5 HOH B 26 663 663 HOH HOH . J 5 HOH B 27 666 666 HOH HOH . J 5 HOH B 28 667 667 HOH HOH . J 5 HOH B 29 668 668 HOH HOH . J 5 HOH B 30 669 669 HOH HOH . J 5 HOH B 31 673 673 HOH HOH . J 5 HOH B 32 675 675 HOH HOH . J 5 HOH B 33 677 677 HOH HOH . J 5 HOH B 34 680 680 HOH HOH . J 5 HOH B 35 684 684 HOH HOH . J 5 HOH B 36 687 687 HOH HOH . J 5 HOH B 37 688 688 HOH HOH . J 5 HOH B 38 689 689 HOH HOH . J 5 HOH B 39 690 690 HOH HOH . J 5 HOH B 40 696 696 HOH HOH . J 5 HOH B 41 697 697 HOH HOH . J 5 HOH B 42 702 702 HOH HOH . J 5 HOH B 43 703 703 HOH HOH . J 5 HOH B 44 705 705 HOH HOH . J 5 HOH B 45 706 706 HOH HOH . J 5 HOH B 46 707 707 HOH HOH . J 5 HOH B 47 711 711 HOH HOH . J 5 HOH B 48 712 712 HOH HOH . J 5 HOH B 49 715 715 HOH HOH . J 5 HOH B 50 718 718 HOH HOH . J 5 HOH B 51 719 719 HOH HOH . J 5 HOH B 52 720 720 HOH HOH . J 5 HOH B 53 722 722 HOH HOH . J 5 HOH B 54 725 725 HOH HOH . J 5 HOH B 55 731 731 HOH HOH . J 5 HOH B 56 732 732 HOH HOH . J 5 HOH B 57 738 738 HOH HOH . J 5 HOH B 58 744 744 HOH HOH . J 5 HOH B 59 745 745 HOH HOH . J 5 HOH B 60 746 746 HOH HOH . J 5 HOH B 61 747 747 HOH HOH . J 5 HOH B 62 750 750 HOH HOH . J 5 HOH B 63 751 751 HOH HOH . J 5 HOH B 64 753 753 HOH HOH . J 5 HOH B 65 756 756 HOH HOH . J 5 HOH B 66 758 758 HOH HOH . J 5 HOH B 67 759 759 HOH HOH . J 5 HOH B 68 760 760 HOH HOH . J 5 HOH B 69 765 765 HOH HOH . J 5 HOH B 70 766 766 HOH HOH . J 5 HOH B 71 767 767 HOH HOH . J 5 HOH B 72 771 771 HOH HOH . J 5 HOH B 73 772 772 HOH HOH . J 5 HOH B 74 778 778 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 PG APC . . . H 4 -6.378 -3.197 15.104 1 89.9 ? PG APC 502 B 1 HETATM 2 O O1G APC . . . H 4 -5.344 -3.251 16.162 1 89.65 ? O1G APC 502 B 1 HETATM 3 O O2G APC . . . H 4 -6.351 -2.059 14.141 1 88 ? O2G APC 502 B 1 HETATM 4 O O3G APC . . . H 4 -7.823 -3.216 15.827 1 88.08 ? O3G APC 502 B 1 HETATM 5 P PB APC . . . H 4 -5.006 -5.189 13.634 1 91.08 ? PB APC 502 B 1 HETATM 6 O O1B APC . . . H 4 -5.384 -6.275 12.695 1 90.09 ? O1B APC 502 B 1 HETATM 7 O O2B APC . . . H 4 -4.2 -4.061 13.1 1 91.69 ? O2B APC 502 B 1 HETATM 8 O O3B APC . . . H 4 -6.377 -4.588 14.266 1 90.91 ? O3B APC 502 B 1 HETATM 9 P PA APC . . . H 4 -4.626 -7.587 15.414 1 87.19 ? PA APC 502 B 1 HETATM 10 O O1A APC . . . H 4 -4.281 -7.855 16.839 1 86.44 ? O1A APC 502 B 1 HETATM 11 O O2A APC . . . H 4 -6.015 -7.842 14.973 1 86.51 ? O2A APC 502 B 1 HETATM 12 C C3A APC . . . H 4 -4.181 -5.873 15.086 1 89.28 ? C3A APC 502 B 1 HETATM 13 O O5' APC . . . H 4 -3.605 -8.39 14.448 1 86.59 ? O5' APC 502 B 1 HETATM 14 C C5' APC . . . H 4 -3.232 -9.751 14.723 1 84.21 ? C5' APC 502 B 1 HETATM 15 C C4' APC . . . H 4 -2.109 -10.231 13.769 1 83.17 ? C4' APC 502 B 1 HETATM 16 O O4' APC . . . H 4 -2.508 -9.929 12.374 1 82.03 ? O4' APC 502 B 1 HETATM 17 C C3' APC . . . H 4 -0.813 -9.436 14.001 1 82.46 ? C3' APC 502 B 1 HETATM 18 O O3' APC . . . H 4 0.316 -10.3 13.81 1 80.13 ? O3' APC 502 B 1 HETATM 19 C C2' APC . . . H 4 -0.828 -8.366 12.933 1 82.19 ? C2' APC 502 B 1 HETATM 20 O O2' APC . . . H 4 0.514 -8.013 12.579 1 81.84 ? O2' APC 502 B 1 HETATM 21 C C1' APC . . . H 4 -1.476 -9.084 11.768 1 81.89 ? C1' APC 502 B 1 HETATM 22 N N9 APC . . . H 4 -2.028 -8.15 10.737 1 82.53 ? N9 APC 502 B 1 HETATM 23 C C8 APC . . . H 4 -3.132 -7.395 10.861 1 83 ? C8 APC 502 B 1 HETATM 24 N N7 APC . . . H 4 -3.354 -6.742 9.711 1 83.04 ? N7 APC 502 B 1 HETATM 25 C C5 APC . . . H 4 -2.397 -7.076 8.855 1 82.6 ? C5 APC 502 B 1 HETATM 26 C C6 APC . . . H 4 -2.131 -6.715 7.53 1 81.98 ? C6 APC 502 B 1 HETATM 27 N N6 APC . . . H 4 -2.945 -5.888 6.881 1 79.29 ? N6 APC 502 B 1 HETATM 28 N N1 APC . . . H 4 -1.047 -7.234 6.905 1 83.42 ? N1 APC 502 B 1 HETATM 29 C C2 APC . . . H 4 -0.189 -8.137 7.592 1 83.14 ? C2 APC 502 B 1 HETATM 30 N N3 APC . . . H 4 -0.458 -8.476 8.857 1 82.4 ? N3 APC 502 B 1 HETATM 31 C C4 APC . . . H 4 -1.542 -7.967 9.505 1 83.1 ? C4 APC 502 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 239 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #