data_1RGT # _model_server_result.job_id Rj-yT9LNl_cr6te6swGtPQ _model_server_result.datetime_utc '2024-11-24 12:49:12' _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 1rgt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":999}' # _entry.id 1RGT # _exptl.entry_id 1RGT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 202.34 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SPERMINE _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 1RGT _cell.length_a 49.791 _cell.length_b 104.894 _cell.length_c 194.124 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RGT _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,G,H,L,N 1 1 B,D,I,J,K,M,O 2 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 4 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A O3' DC 4 D DC 806 1_555 E V VO4 . A VO4 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.806 ? metalc ? metalc2 B O3' DC 4 F DC 806 1_555 I V VO4 . B VO4 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.951 ? metalc ? metalc3 C NE2 HIS 140 A HIS 263 1_555 E V VO4 . A VO4 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc4 E V VO4 . A VO4 699 1_555 G O4 OTS . A OTS 995 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.018 ? metalc ? metalc5 E V VO4 . A VO4 699 1_555 H O4 OTR . A OTR 996 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.018 ? metalc ? metalc6 D NE2 HIS 140 B HIS 263 1_555 I V VO4 . B VO4 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? metalc ? metalc7 I V VO4 . B VO4 699 1_555 J O4 OTS . B OTS 997 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.061 ? metalc ? metalc8 I V VO4 . B VO4 699 1_555 K O4 OTR . B OTR 998 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.061 ? # _chem_comp.formula 'C10 H26 N4' _chem_comp.formula_weight 202.34 _chem_comp.id SPM _chem_comp.mon_nstd_flag . _chem_comp.name SPERMINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 N1 C2 SPM sing 483 n n N1 HN11 SPM sing 484 n n N1 HN12 SPM sing 485 n n C2 C3 SPM sing 486 n n C2 H21 SPM sing 487 n n C2 H22 SPM sing 488 n n C3 C4 SPM sing 489 n n C3 H31 SPM sing 490 n n C3 H32 SPM sing 491 n n C4 N5 SPM sing 492 n n C4 H41 SPM sing 493 n n C4 H42 SPM sing 494 n n N5 C6 SPM sing 495 n n N5 HN5 SPM sing 496 n n C6 C7 SPM sing 497 n n C6 H61 SPM sing 498 n n C6 H62 SPM sing 499 n n C7 C8 SPM sing 500 n n C7 H71 SPM sing 501 n n C7 H72 SPM sing 502 n n C8 C9 SPM sing 503 n n C8 H81 SPM sing 504 n n C8 H82 SPM sing 505 n n C9 N10 SPM sing 506 n n C9 H91 SPM sing 507 n n C9 H92 SPM sing 508 n n N10 C11 SPM sing 509 n n N10 HN0 SPM sing 510 n n C11 C12 SPM sing 511 n n C11 H111 SPM sing 512 n n C11 H112 SPM sing 513 n n C12 C13 SPM sing 514 n n C12 H121 SPM sing 515 n n C12 H122 SPM sing 516 n n C13 N14 SPM sing 517 n n C13 H131 SPM sing 518 n n C13 H132 SPM sing 519 n n N14 HN41 SPM sing 520 n n N14 HN42 SPM sing 521 n n # _atom_sites.entry_id 1RGT _atom_sites.fract_transf_matrix[1][1] 0.020084 _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] 0.009533 _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] 0.005151 _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 E 3 VO4 A 1 699 699 VO4 VO4 . F 4 SPM A 1 999 999 SPM SPM . G 5 OTS A 1 995 997 OTS OTS . H 6 OTR A 1 996 997 OTR OTR . I 3 VO4 B 1 699 699 VO4 VO4 . J 5 OTS B 1 997 998 OTS OTS . K 6 OTR B 1 998 998 OTR OTR . L 7 HOH D 1 701 701 HOH HOH . L 7 HOH D 2 704 704 HOH HOH . L 7 HOH D 3 825 825 HOH HOH . L 7 HOH D 4 861 861 HOH HOH . L 7 HOH D 5 920 920 HOH HOH . L 7 HOH D 6 921 921 HOH HOH . M 7 HOH F 1 809 809 HOH HOH . M 7 HOH F 2 913 913 HOH HOH . M 7 HOH F 3 925 925 HOH HOH . N 7 HOH A 1 700 700 HOH HOH . N 7 HOH A 2 702 702 HOH HOH . N 7 HOH A 3 703 703 HOH HOH . N 7 HOH A 4 705 705 HOH HOH . N 7 HOH A 5 706 706 HOH HOH . N 7 HOH A 6 707 707 HOH HOH . N 7 HOH A 7 708 708 HOH HOH . N 7 HOH A 8 709 709 HOH HOH . N 7 HOH A 9 710 710 HOH HOH . N 7 HOH A 10 711 711 HOH HOH . N 7 HOH A 11 712 712 HOH HOH . N 7 HOH A 12 713 713 HOH HOH . N 7 HOH A 13 714 714 HOH HOH . N 7 HOH A 14 715 715 HOH HOH . N 7 HOH A 15 716 716 HOH HOH . N 7 HOH A 16 717 717 HOH HOH . N 7 HOH A 17 718 718 HOH HOH . N 7 HOH A 18 719 719 HOH HOH . N 7 HOH A 19 720 720 HOH HOH . N 7 HOH A 20 721 721 HOH HOH . N 7 HOH A 21 722 722 HOH HOH . N 7 HOH A 22 723 723 HOH HOH . N 7 HOH A 23 724 724 HOH HOH . N 7 HOH A 24 725 725 HOH HOH . N 7 HOH A 25 726 726 HOH HOH . N 7 HOH A 26 727 727 HOH HOH . N 7 HOH A 27 728 728 HOH HOH . N 7 HOH A 28 729 729 HOH HOH . N 7 HOH A 29 730 730 HOH HOH . N 7 HOH A 30 731 731 HOH HOH . N 7 HOH A 31 732 732 HOH HOH . N 7 HOH A 32 733 733 HOH HOH . N 7 HOH A 33 734 734 HOH HOH . N 7 HOH A 34 735 735 HOH HOH . N 7 HOH A 35 736 736 HOH HOH . N 7 HOH A 36 737 737 HOH HOH . N 7 HOH A 37 738 738 HOH HOH . N 7 HOH A 38 739 739 HOH HOH . N 7 HOH A 39 740 740 HOH HOH . N 7 HOH A 40 741 741 HOH HOH . N 7 HOH A 41 742 742 HOH HOH . N 7 HOH A 42 743 743 HOH HOH . N 7 HOH A 43 744 744 HOH HOH . N 7 HOH A 44 745 745 HOH HOH . N 7 HOH A 45 746 746 HOH HOH . N 7 HOH A 46 747 747 HOH HOH . N 7 HOH A 47 748 748 HOH HOH . N 7 HOH A 48 749 749 HOH HOH . N 7 HOH A 49 750 750 HOH HOH . N 7 HOH A 50 751 751 HOH HOH . N 7 HOH A 51 752 752 HOH HOH . N 7 HOH A 52 753 753 HOH HOH . N 7 HOH A 53 754 754 HOH HOH . N 7 HOH A 54 755 755 HOH HOH . N 7 HOH A 55 756 756 HOH HOH . N 7 HOH A 56 757 757 HOH HOH . N 7 HOH A 57 758 758 HOH HOH . N 7 HOH A 58 759 759 HOH HOH . N 7 HOH A 59 760 760 HOH HOH . N 7 HOH A 60 761 761 HOH HOH . N 7 HOH A 61 762 762 HOH HOH . N 7 HOH A 62 826 826 HOH HOH . N 7 HOH A 63 827 827 HOH HOH . N 7 HOH A 64 828 828 HOH HOH . N 7 HOH A 65 829 829 HOH HOH . N 7 HOH A 66 830 830 HOH HOH . N 7 HOH A 67 831 831 HOH HOH . N 7 HOH A 68 832 832 HOH HOH . N 7 HOH A 69 833 833 HOH HOH . N 7 HOH A 70 834 834 HOH HOH . N 7 HOH A 71 835 835 HOH HOH . N 7 HOH A 72 836 836 HOH HOH . N 7 HOH A 73 837 837 HOH HOH . N 7 HOH A 74 838 838 HOH HOH . N 7 HOH A 75 839 839 HOH HOH . N 7 HOH A 76 840 840 HOH HOH . N 7 HOH A 77 841 841 HOH HOH . N 7 HOH A 78 842 842 HOH HOH . N 7 HOH A 79 843 843 HOH HOH . N 7 HOH A 80 844 844 HOH HOH . N 7 HOH A 81 845 845 HOH HOH . N 7 HOH A 82 846 846 HOH HOH . N 7 HOH A 83 848 848 HOH HOH . N 7 HOH A 84 849 849 HOH HOH . N 7 HOH A 85 850 850 HOH HOH . N 7 HOH A 86 851 851 HOH HOH . N 7 HOH A 87 852 852 HOH HOH . N 7 HOH A 88 853 853 HOH HOH . N 7 HOH A 89 854 854 HOH HOH . N 7 HOH A 90 855 855 HOH HOH . N 7 HOH A 91 856 856 HOH HOH . N 7 HOH A 92 857 857 HOH HOH . N 7 HOH A 93 858 858 HOH HOH . N 7 HOH A 94 859 859 HOH HOH . N 7 HOH A 95 860 860 HOH HOH . N 7 HOH A 96 862 862 HOH HOH . N 7 HOH A 97 863 863 HOH HOH . N 7 HOH A 98 916 916 HOH HOH . N 7 HOH A 99 917 917 HOH HOH . N 7 HOH A 100 919 919 HOH HOH . N 7 HOH A 101 922 922 HOH HOH . O 7 HOH B 1 763 763 HOH HOH . O 7 HOH B 2 764 764 HOH HOH . O 7 HOH B 3 765 765 HOH HOH . O 7 HOH B 4 766 766 HOH HOH . O 7 HOH B 5 767 767 HOH HOH . O 7 HOH B 6 768 768 HOH HOH . O 7 HOH B 7 769 769 HOH HOH . O 7 HOH B 8 770 770 HOH HOH . O 7 HOH B 9 771 771 HOH HOH . O 7 HOH B 10 772 772 HOH HOH . O 7 HOH B 11 773 773 HOH HOH . O 7 HOH B 12 774 774 HOH HOH . O 7 HOH B 13 775 775 HOH HOH . O 7 HOH B 14 776 776 HOH HOH . O 7 HOH B 15 777 777 HOH HOH . O 7 HOH B 16 778 778 HOH HOH . O 7 HOH B 17 779 779 HOH HOH . O 7 HOH B 18 780 780 HOH HOH . O 7 HOH B 19 781 781 HOH HOH . O 7 HOH B 20 782 782 HOH HOH . O 7 HOH B 21 783 783 HOH HOH . O 7 HOH B 22 784 784 HOH HOH . O 7 HOH B 23 785 785 HOH HOH . O 7 HOH B 24 786 786 HOH HOH . O 7 HOH B 25 787 787 HOH HOH . O 7 HOH B 26 788 788 HOH HOH . O 7 HOH B 27 789 789 HOH HOH . O 7 HOH B 28 790 790 HOH HOH . O 7 HOH B 29 791 791 HOH HOH . O 7 HOH B 30 792 792 HOH HOH . O 7 HOH B 31 793 793 HOH HOH . O 7 HOH B 32 794 794 HOH HOH . O 7 HOH B 33 795 795 HOH HOH . O 7 HOH B 34 796 796 HOH HOH . O 7 HOH B 35 797 797 HOH HOH . O 7 HOH B 36 798 798 HOH HOH . O 7 HOH B 37 799 799 HOH HOH . O 7 HOH B 38 800 800 HOH HOH . O 7 HOH B 39 801 801 HOH HOH . O 7 HOH B 40 802 802 HOH HOH . O 7 HOH B 41 803 803 HOH HOH . O 7 HOH B 42 804 804 HOH HOH . O 7 HOH B 43 805 805 HOH HOH . O 7 HOH B 44 806 806 HOH HOH . O 7 HOH B 45 807 807 HOH HOH . O 7 HOH B 46 808 808 HOH HOH . O 7 HOH B 47 810 810 HOH HOH . O 7 HOH B 48 811 811 HOH HOH . O 7 HOH B 49 812 812 HOH HOH . O 7 HOH B 50 813 813 HOH HOH . O 7 HOH B 51 814 814 HOH HOH . O 7 HOH B 52 815 815 HOH HOH . O 7 HOH B 53 816 816 HOH HOH . O 7 HOH B 54 817 817 HOH HOH . O 7 HOH B 55 818 818 HOH HOH . O 7 HOH B 56 819 819 HOH HOH . O 7 HOH B 57 820 820 HOH HOH . O 7 HOH B 58 821 821 HOH HOH . O 7 HOH B 59 822 822 HOH HOH . O 7 HOH B 60 823 823 HOH HOH . O 7 HOH B 61 847 847 HOH HOH . O 7 HOH B 62 865 865 HOH HOH . O 7 HOH B 63 866 866 HOH HOH . O 7 HOH B 64 867 867 HOH HOH . O 7 HOH B 65 868 868 HOH HOH . O 7 HOH B 66 869 869 HOH HOH . O 7 HOH B 67 870 870 HOH HOH . O 7 HOH B 68 871 871 HOH HOH . O 7 HOH B 69 872 872 HOH HOH . O 7 HOH B 70 873 873 HOH HOH . O 7 HOH B 71 874 874 HOH HOH . O 7 HOH B 72 875 875 HOH HOH . O 7 HOH B 73 876 876 HOH HOH . O 7 HOH B 74 877 877 HOH HOH . O 7 HOH B 75 878 878 HOH HOH . O 7 HOH B 76 879 879 HOH HOH . O 7 HOH B 77 880 880 HOH HOH . O 7 HOH B 78 881 881 HOH HOH . O 7 HOH B 79 882 882 HOH HOH . O 7 HOH B 80 883 883 HOH HOH . O 7 HOH B 81 885 885 HOH HOH . O 7 HOH B 82 886 886 HOH HOH . O 7 HOH B 83 887 887 HOH HOH . O 7 HOH B 84 888 888 HOH HOH . O 7 HOH B 85 889 889 HOH HOH . O 7 HOH B 86 890 890 HOH HOH . O 7 HOH B 87 891 891 HOH HOH . O 7 HOH B 88 892 892 HOH HOH . O 7 HOH B 89 893 893 HOH HOH . O 7 HOH B 90 894 894 HOH HOH . O 7 HOH B 91 895 895 HOH HOH . O 7 HOH B 92 896 896 HOH HOH . O 7 HOH B 93 897 897 HOH HOH . O 7 HOH B 94 898 898 HOH HOH . O 7 HOH B 95 899 899 HOH HOH . O 7 HOH B 96 900 900 HOH HOH . O 7 HOH B 97 902 902 HOH HOH . O 7 HOH B 98 903 903 HOH HOH . O 7 HOH B 99 904 904 HOH HOH . O 7 HOH B 100 905 905 HOH HOH . O 7 HOH B 101 906 906 HOH HOH . O 7 HOH B 102 907 907 HOH HOH . O 7 HOH B 103 908 908 HOH HOH . O 7 HOH B 104 909 909 HOH HOH . O 7 HOH B 105 910 910 HOH HOH . O 7 HOH B 106 911 911 HOH HOH . O 7 HOH B 107 912 912 HOH HOH . O 7 HOH B 108 914 914 HOH HOH . O 7 HOH B 109 915 915 HOH HOH . O 7 HOH B 110 918 918 HOH HOH . O 7 HOH B 111 923 923 HOH HOH . O 7 HOH B 112 924 924 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 N N1 SPM . . . F 4 -0.181 57.387 -22.829 1 30.1 ? N1 SPM 999 A 1 HETATM 2 C C2 SPM . . . F 4 0.305 56.59 -21.706 1 27.27 ? C2 SPM 999 A 1 HETATM 3 C C3 SPM . . . F 4 0.994 57.465 -20.684 1 29.12 ? C3 SPM 999 A 1 HETATM 4 C C4 SPM . . . F 4 2.177 56.755 -20.029 1 31.02 ? C4 SPM 999 A 1 HETATM 5 N N5 SPM . . . F 4 2.001 56.629 -18.593 1 31.42 ? N5 SPM 999 A 1 HETATM 6 C C6 SPM . . . F 4 2.713 55.6 -17.874 1 35.96 ? C6 SPM 999 A 1 HETATM 7 C C7 SPM . . . F 4 3.788 56.137 -16.943 1 37.89 ? C7 SPM 999 A 1 HETATM 8 C C8 SPM . . . F 4 4.428 54.958 -16.23 1 39.58 ? C8 SPM 999 A 1 HETATM 9 C C9 SPM . . . F 4 5.603 55.388 -15.361 1 42.64 ? C9 SPM 999 A 1 HETATM 10 N N10 SPM . . . F 4 6.348 54.227 -14.913 1 45.3 ? N10 SPM 999 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 10 #