data_5LGB # _model_server_result.job_id W7CK9MkWGqC28z7IIJvdOw _model_server_result.datetime_utc '2024-11-05 10:54:50' _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 5lgb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":602}' # _entry.id 5LGB # _exptl.entry_id 5LGB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 192.301 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N,N'-BIS(2,3-BUTADIENYL)-1,4-BUTANE-DIAMINE" _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 5LGB _cell.length_a 121.08 _cell.length_b 121.08 _cell.length_c 55.03 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LGB _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61' # _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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C12 H20 N2' _chem_comp.formula_weight 192.301 _chem_comp.id MD2 _chem_comp.mon_nstd_flag . _chem_comp.name "N,N'-BIS(2,3-BUTADIENYL)-1,4-BUTANE-DIAMINE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms MDL72527 # 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 C1 C2 MD2 doub 343 n n C1 HC11 MD2 sing 344 n n C1 HC1A MD2 sing 345 n n C6 C7 MD2 sing 346 n n C6 N5 MD2 sing 347 n n C6 HC61 MD2 sing 348 n n C6 HC62 MD2 sing 349 n n C7 C8 MD2 sing 350 n n C7 HC71 MD2 sing 351 n n C7 HC72 MD2 sing 352 n n C11 C12 MD2 sing 353 n n C11 N10 MD2 sing 354 n n C11 H111 MD2 sing 355 n n C11 H112 MD2 sing 356 n n C12 C13 MD2 doub 357 n n C12 HC12 MD2 sing 358 n n C2 C3 MD2 doub 359 n n C3 C4 MD2 sing 360 n n C3 HC3 MD2 sing 361 n n C4 N5 MD2 sing 362 n n C4 HC41 MD2 sing 363 n n C4 HC42 MD2 sing 364 n n N5 HN5 MD2 sing 365 n n C8 C9 MD2 sing 366 n n C8 HC81 MD2 sing 367 n n C8 HC82 MD2 sing 368 n n C9 N10 MD2 sing 369 n n C9 HC91 MD2 sing 370 n n C9 HC92 MD2 sing 371 n n N10 HN10 MD2 sing 372 n n C13 C14 MD2 doub 373 n n C14 H141 MD2 sing 374 n n C14 H142 MD2 sing 375 n n # _atom_sites.entry_id 5LGB _atom_sites.fract_transf_matrix[1][1] 0.008259 _atom_sites.fract_transf_matrix[1][2] 0.004768 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009537 _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] 0.018172 _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 6YU A 1 601 601 6YU 6YU . C 3 MD2 A 1 602 602 MD2 MD2 . D 4 HOH A 1 701 701 HOH HOH . D 4 HOH A 2 702 702 HOH HOH . D 4 HOH A 3 703 703 HOH HOH . D 4 HOH A 4 704 704 HOH HOH . D 4 HOH A 5 705 705 HOH HOH . D 4 HOH A 6 706 706 HOH HOH . D 4 HOH A 7 707 707 HOH HOH . D 4 HOH A 8 708 708 HOH HOH . D 4 HOH A 9 709 709 HOH HOH . D 4 HOH A 10 710 710 HOH HOH . D 4 HOH A 11 711 711 HOH HOH . D 4 HOH A 12 712 712 HOH HOH . D 4 HOH A 13 713 713 HOH HOH . D 4 HOH A 14 714 714 HOH HOH . D 4 HOH A 15 715 715 HOH HOH . D 4 HOH A 16 716 716 HOH HOH . D 4 HOH A 17 717 717 HOH HOH . D 4 HOH A 18 718 718 HOH HOH . D 4 HOH A 19 719 719 HOH HOH . D 4 HOH A 20 720 720 HOH HOH . D 4 HOH A 21 721 721 HOH HOH . D 4 HOH A 22 722 722 HOH HOH . D 4 HOH A 23 723 723 HOH HOH . D 4 HOH A 24 724 724 HOH HOH . D 4 HOH A 25 725 725 HOH HOH . D 4 HOH A 26 726 726 HOH HOH . D 4 HOH A 27 727 727 HOH HOH . D 4 HOH A 28 728 728 HOH HOH . D 4 HOH A 29 729 729 HOH HOH . D 4 HOH A 30 730 730 HOH HOH . D 4 HOH A 31 731 731 HOH HOH . D 4 HOH A 32 732 732 HOH HOH . D 4 HOH A 33 733 733 HOH HOH . D 4 HOH A 34 734 734 HOH HOH . D 4 HOH A 35 735 735 HOH HOH . D 4 HOH A 36 736 736 HOH HOH . D 4 HOH A 37 737 737 HOH HOH . D 4 HOH A 38 738 738 HOH HOH . D 4 HOH A 39 739 739 HOH HOH . D 4 HOH A 40 740 740 HOH HOH . D 4 HOH A 41 741 741 HOH HOH . D 4 HOH A 42 742 742 HOH HOH . D 4 HOH A 43 743 743 HOH HOH . D 4 HOH A 44 744 744 HOH HOH . D 4 HOH A 45 745 745 HOH HOH . D 4 HOH A 46 746 746 HOH HOH . D 4 HOH A 47 747 747 HOH HOH . D 4 HOH A 48 748 748 HOH HOH . D 4 HOH A 49 749 749 HOH HOH . D 4 HOH A 50 750 750 HOH HOH . D 4 HOH A 51 751 751 HOH HOH . D 4 HOH A 52 752 752 HOH HOH . D 4 HOH A 53 753 753 HOH HOH . D 4 HOH A 54 754 754 HOH HOH . D 4 HOH A 55 755 755 HOH HOH . D 4 HOH A 56 756 756 HOH HOH . D 4 HOH A 57 757 757 HOH HOH . D 4 HOH A 58 758 758 HOH HOH . D 4 HOH A 59 759 759 HOH HOH . D 4 HOH A 60 760 760 HOH HOH . D 4 HOH A 61 761 761 HOH HOH . D 4 HOH A 62 762 762 HOH HOH . D 4 HOH A 63 763 763 HOH HOH . D 4 HOH A 64 764 764 HOH HOH . D 4 HOH A 65 765 765 HOH HOH . D 4 HOH A 66 766 766 HOH HOH . D 4 HOH A 67 767 767 HOH HOH . D 4 HOH A 68 768 768 HOH HOH . D 4 HOH A 69 769 769 HOH HOH . D 4 HOH A 70 770 770 HOH HOH . D 4 HOH A 71 771 771 HOH HOH . D 4 HOH A 72 772 772 HOH HOH . D 4 HOH A 73 773 773 HOH HOH . D 4 HOH A 74 774 774 HOH HOH . D 4 HOH A 75 775 775 HOH HOH . D 4 HOH A 76 776 776 HOH HOH . D 4 HOH A 77 777 777 HOH HOH . D 4 HOH A 78 778 778 HOH HOH . D 4 HOH A 79 779 779 HOH HOH . D 4 HOH A 80 780 780 HOH HOH . D 4 HOH A 81 781 781 HOH HOH . D 4 HOH A 82 782 782 HOH HOH . D 4 HOH A 83 783 783 HOH HOH . D 4 HOH A 84 784 784 HOH HOH . D 4 HOH A 85 785 785 HOH HOH . D 4 HOH A 86 786 786 HOH HOH . D 4 HOH A 87 787 788 HOH HOH . D 4 HOH A 88 788 789 HOH HOH . D 4 HOH A 89 789 790 HOH HOH . D 4 HOH A 90 790 791 HOH HOH . D 4 HOH A 91 791 792 HOH HOH . D 4 HOH A 92 792 793 HOH HOH . D 4 HOH A 93 793 794 HOH HOH . D 4 HOH A 94 794 795 HOH HOH . D 4 HOH A 95 795 796 HOH HOH . D 4 HOH A 96 796 797 HOH HOH . D 4 HOH A 97 797 798 HOH HOH . D 4 HOH A 98 798 799 HOH HOH . D 4 HOH A 99 799 800 HOH HOH . D 4 HOH A 100 800 801 HOH HOH . D 4 HOH A 101 801 802 HOH HOH . D 4 HOH A 102 802 803 HOH HOH . D 4 HOH A 103 803 804 HOH HOH . D 4 HOH A 104 804 805 HOH HOH . D 4 HOH A 105 805 806 HOH HOH . D 4 HOH A 106 806 807 HOH HOH . D 4 HOH A 107 807 808 HOH HOH . D 4 HOH A 108 808 809 HOH HOH . D 4 HOH A 109 809 810 HOH HOH . D 4 HOH A 110 810 811 HOH HOH . D 4 HOH A 111 811 812 HOH HOH . D 4 HOH A 112 812 813 HOH HOH . D 4 HOH A 113 813 814 HOH HOH . D 4 HOH A 114 814 815 HOH HOH . D 4 HOH A 115 815 816 HOH HOH . D 4 HOH A 116 816 817 HOH HOH . D 4 HOH A 117 817 818 HOH HOH . D 4 HOH A 118 818 819 HOH HOH . D 4 HOH A 119 819 820 HOH HOH . D 4 HOH A 120 820 821 HOH HOH . D 4 HOH A 121 821 822 HOH HOH . D 4 HOH A 122 822 823 HOH HOH . D 4 HOH A 123 823 824 HOH HOH . D 4 HOH A 124 824 825 HOH HOH . D 4 HOH A 125 825 826 HOH HOH . D 4 HOH A 126 826 827 HOH HOH . D 4 HOH A 127 827 828 HOH HOH . D 4 HOH A 128 828 829 HOH HOH . D 4 HOH A 129 829 830 HOH HOH . D 4 HOH A 130 830 831 HOH HOH . D 4 HOH A 131 831 832 HOH HOH . D 4 HOH A 132 832 833 HOH HOH . D 4 HOH A 133 833 834 HOH HOH . D 4 HOH A 134 834 835 HOH HOH . D 4 HOH A 135 835 836 HOH HOH . D 4 HOH A 136 836 837 HOH HOH . D 4 HOH A 137 837 838 HOH HOH . D 4 HOH A 138 838 839 HOH HOH . D 4 HOH A 139 839 840 HOH HOH . D 4 HOH A 140 840 841 HOH HOH . D 4 HOH A 141 841 842 HOH HOH . D 4 HOH A 142 842 843 HOH HOH . D 4 HOH A 143 843 844 HOH HOH . D 4 HOH A 144 844 845 HOH HOH . D 4 HOH A 145 845 846 HOH HOH . D 4 HOH A 146 846 847 HOH HOH . D 4 HOH A 147 847 787 HOH HOH . D 4 HOH A 148 848 848 HOH HOH . D 4 HOH A 149 849 849 HOH HOH . D 4 HOH A 150 850 850 HOH HOH . D 4 HOH A 151 851 851 HOH HOH . D 4 HOH A 152 852 852 HOH HOH . D 4 HOH A 153 853 853 HOH HOH . D 4 HOH A 154 854 854 HOH HOH . D 4 HOH A 155 855 855 HOH HOH . D 4 HOH A 156 856 856 HOH HOH . D 4 HOH A 157 857 857 HOH HOH . D 4 HOH A 158 858 858 HOH HOH . D 4 HOH A 159 859 859 HOH HOH . D 4 HOH A 160 860 860 HOH HOH . D 4 HOH A 161 861 861 HOH HOH . D 4 HOH A 162 862 862 HOH HOH . D 4 HOH A 163 863 863 HOH HOH . D 4 HOH A 164 864 864 HOH HOH . D 4 HOH A 165 865 865 HOH HOH . D 4 HOH A 166 866 866 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 C C1 MD2 . . . C 3 -8.627 45.949 -1.742 1 64.79 ? C1 MD2 602 A 1 HETATM 2 C C6 MD2 . . . C 3 -8.253 47.949 -6.654 1 60.61 ? C6 MD2 602 A 1 HETATM 3 C C7 MD2 . . . C 3 -8.503 47.272 -7.975 1 60.46 ? C7 MD2 602 A 1 HETATM 4 C C11 MD2 . . . C 3 -5.425 47.286 -11.607 1 67.14 ? C11 MD2 602 A 1 HETATM 5 C C12 MD2 . . . C 3 -4.436 46.483 -12.367 1 69.26 ? C12 MD2 602 A 1 HETATM 6 C C2 MD2 . . . C 3 -7.774 46.059 -2.716 1 65.3 ? C2 MD2 602 A 1 HETATM 7 C C3 MD2 . . . C 3 -6.925 46.152 -3.693 1 63.36 ? C3 MD2 602 A 1 HETATM 8 C C4 MD2 . . . C 3 -7.013 47.076 -4.848 1 61.26 ? C4 MD2 602 A 1 HETATM 9 N N5 MD2 . . . C 3 -8.271 46.968 -5.575 1 60.58 ? N5 MD2 602 A 1 HETATM 10 C C8 MD2 . . . C 3 -7.205 46.836 -8.595 1 62.68 ? C8 MD2 602 A 1 HETATM 11 C C9 MD2 . . . C 3 -7.128 47.345 -10.012 1 64.66 ? C9 MD2 602 A 1 HETATM 12 N N10 MD2 . . . C 3 -6.24 46.459 -10.736 1 65.66 ? N10 MD2 602 A 1 HETATM 13 C C13 MD2 . . . C 3 -3.515 46.996 -13.128 1 71.58 ? C13 MD2 602 A 1 HETATM 14 C C14 MD2 . . . C 3 -2.602 47.525 -13.885 1 71.55 ? C14 MD2 602 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 224 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #