data_7U3M # _model_server_result.job_id N-glybxsBLyaVd3e9qKcWQ _model_server_result.datetime_utc '2024-11-24 03:57:51' _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 7u3m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":701}' # _entry.id 7U3M # _exptl.entry_id 7U3M _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 249.309 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-hydroxy-4-[(4-methylpiperazin-1-yl)methyl]benzamide _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 7U3M _cell.length_a 80.75 _cell.length_b 80.75 _cell.length_c 248.874 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7U3M _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _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 disulf ? disulf1 A SG CYS 543 A CYS 543 1_555 A SG CYS 543 A CYS 543 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc1 A O ASP 172 A ASP 172 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.884 ? metalc ? metalc2 A OD2 ASP 172 A ASP 172 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc3 A OD2 ASP 174 A ASP 174 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc4 A O ASP 174 A ASP 174 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.615 ? metalc ? metalc5 A ND1 HIS 176 A HIS 176 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc6 A O HIS 176 A HIS 176 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.674 ? metalc ? metalc7 A O PHE 185 A PHE 185 1_555 E K K . A K 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc8 A O ASP 188 A ASP 188 1_555 E K K . A K 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? metalc ? metalc9 A O VAL 191 A VAL 191 1_555 E K K . A K 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? metalc ? metalc10 A OG SER 195 A SER 195 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.865 ? metalc ? metalc11 A O TRP 196 A TRP 196 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.666 ? metalc ? metalc12 A O PHE 224 A PHE 224 1_555 E K K . A K 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.32 ? metalc ? metalc13 A OD2 ASP 267 A ASP 267 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc14 B N15 L8C . A L8C 701 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.679 ? metalc ? metalc15 B O16 L8C . A L8C 701 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? metalc ? metalc16 C ZN ZN . A ZN 702 1_555 I O HOH . A HOH 816 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? metalc ? metalc17 E K K . A K 704 1_555 I O HOH . A HOH 867 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc18 E K K . A K 704 1_555 I O HOH . A HOH 885 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? # _chem_comp.formula 'C13 H19 N3 O2' _chem_comp.formula_weight 249.309 _chem_comp.id L8C _chem_comp.mon_nstd_flag . _chem_comp.name N-hydroxy-4-[(4-methylpiperazin-1-yl)methyl]benzamide _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 C01 N02 L8C sing 173 n n O16 N15 L8C sing 174 n n N15 C13 L8C sing 175 n n N02 C03 L8C sing 176 n n N02 C18 L8C sing 177 n n C03 C04 L8C sing 178 n n C18 C17 L8C sing 179 n n C09 C08 L8C doub 180 n y C09 C10 L8C sing 181 n y C08 C07 L8C sing 182 n y C13 C10 L8C sing 183 n n C13 O14 L8C doub 184 n n C04 N05 L8C sing 185 n n N05 C17 L8C sing 186 n n N05 C06 L8C sing 187 n n C10 C11 L8C doub 188 n y C07 C06 L8C sing 189 n n C07 C12 L8C doub 190 n y C11 C12 L8C sing 191 n y C17 H1 L8C sing 192 n n C17 H2 L8C sing 193 n n C01 H3 L8C sing 194 n n C01 H4 L8C sing 195 n n C01 H5 L8C sing 196 n n C03 H6 L8C sing 197 n n C03 H7 L8C sing 198 n n C04 H8 L8C sing 199 n n C04 H9 L8C sing 200 n n C06 H10 L8C sing 201 n n C06 H11 L8C sing 202 n n C08 H12 L8C sing 203 n n C09 H13 L8C sing 204 n n C11 H14 L8C sing 205 n n C12 H15 L8C sing 206 n n C18 H16 L8C sing 207 n n C18 H17 L8C sing 208 n n N15 H20 L8C sing 209 n n O16 H21 L8C sing 210 n n # _atom_sites.entry_id 7U3M _atom_sites.fract_transf_matrix[1][1] 0.012384 _atom_sites.fract_transf_matrix[1][2] 0.00715 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0143 _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] 0.004018 _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 L8C A 1 701 701 L8C LIG . C 3 ZN A 1 702 1 ZN ZN . D 4 K A 1 703 1 K K . E 4 K A 1 704 2 K K . F 5 PO4 A 1 705 1 PO4 PO4 . G 5 PO4 A 1 706 2 PO4 PO4 . H 5 PO4 A 1 707 3 PO4 PO4 . I 6 HOH A 1 801 104 HOH HOH . I 6 HOH A 2 802 26 HOH HOH . I 6 HOH A 3 803 94 HOH HOH . I 6 HOH A 4 804 131 HOH HOH . I 6 HOH A 5 805 148 HOH HOH . I 6 HOH A 6 806 56 HOH HOH . I 6 HOH A 7 807 137 HOH HOH . I 6 HOH A 8 808 97 HOH HOH . I 6 HOH A 9 809 143 HOH HOH . I 6 HOH A 10 810 61 HOH HOH . I 6 HOH A 11 811 63 HOH HOH . I 6 HOH A 12 812 83 HOH HOH . I 6 HOH A 13 813 52 HOH HOH . I 6 HOH A 14 814 157 HOH HOH . I 6 HOH A 15 815 144 HOH HOH . I 6 HOH A 16 816 75 HOH HOH . I 6 HOH A 17 817 16 HOH HOH . I 6 HOH A 18 818 89 HOH HOH . I 6 HOH A 19 819 37 HOH HOH . I 6 HOH A 20 820 119 HOH HOH . I 6 HOH A 21 821 153 HOH HOH . I 6 HOH A 22 822 90 HOH HOH . I 6 HOH A 23 823 21 HOH HOH . I 6 HOH A 24 824 95 HOH HOH . I 6 HOH A 25 825 65 HOH HOH . I 6 HOH A 26 826 2 HOH HOH . I 6 HOH A 27 827 27 HOH HOH . I 6 HOH A 28 828 172 HOH HOH . I 6 HOH A 29 829 13 HOH HOH . I 6 HOH A 30 830 55 HOH HOH . I 6 HOH A 31 831 68 HOH HOH . I 6 HOH A 32 832 59 HOH HOH . I 6 HOH A 33 833 125 HOH HOH . I 6 HOH A 34 834 40 HOH HOH . I 6 HOH A 35 835 6 HOH HOH . I 6 HOH A 36 836 66 HOH HOH . I 6 HOH A 37 837 3 HOH HOH . I 6 HOH A 38 838 57 HOH HOH . I 6 HOH A 39 839 23 HOH HOH . I 6 HOH A 40 840 85 HOH HOH . I 6 HOH A 41 841 15 HOH HOH . I 6 HOH A 42 842 127 HOH HOH . I 6 HOH A 43 843 22 HOH HOH . I 6 HOH A 44 844 29 HOH HOH . I 6 HOH A 45 845 42 HOH HOH . I 6 HOH A 46 846 62 HOH HOH . I 6 HOH A 47 847 171 HOH HOH . I 6 HOH A 48 848 101 HOH HOH . I 6 HOH A 49 849 152 HOH HOH . I 6 HOH A 50 850 91 HOH HOH . I 6 HOH A 51 851 76 HOH HOH . I 6 HOH A 52 852 4 HOH HOH . I 6 HOH A 53 853 86 HOH HOH . I 6 HOH A 54 854 92 HOH HOH . I 6 HOH A 55 855 47 HOH HOH . I 6 HOH A 56 856 32 HOH HOH . I 6 HOH A 57 857 1 HOH HOH . I 6 HOH A 58 858 60 HOH HOH . I 6 HOH A 59 859 81 HOH HOH . I 6 HOH A 60 860 41 HOH HOH . I 6 HOH A 61 861 108 HOH HOH . I 6 HOH A 62 862 82 HOH HOH . I 6 HOH A 63 863 49 HOH HOH . I 6 HOH A 64 864 17 HOH HOH . I 6 HOH A 65 865 19 HOH HOH . I 6 HOH A 66 866 78 HOH HOH . I 6 HOH A 67 867 7 HOH HOH . I 6 HOH A 68 868 149 HOH HOH . I 6 HOH A 69 869 12 HOH HOH . I 6 HOH A 70 870 161 HOH HOH . I 6 HOH A 71 871 154 HOH HOH . I 6 HOH A 72 872 139 HOH HOH . I 6 HOH A 73 873 72 HOH HOH . I 6 HOH A 74 874 164 HOH HOH . I 6 HOH A 75 875 73 HOH HOH . I 6 HOH A 76 876 74 HOH HOH . I 6 HOH A 77 877 155 HOH HOH . I 6 HOH A 78 878 106 HOH HOH . I 6 HOH A 79 879 142 HOH HOH . I 6 HOH A 80 880 71 HOH HOH . I 6 HOH A 81 881 34 HOH HOH . I 6 HOH A 82 882 147 HOH HOH . I 6 HOH A 83 883 168 HOH HOH . I 6 HOH A 84 884 100 HOH HOH . I 6 HOH A 85 885 84 HOH HOH . I 6 HOH A 86 886 20 HOH HOH . I 6 HOH A 87 887 24 HOH HOH . I 6 HOH A 88 888 121 HOH HOH . I 6 HOH A 89 889 145 HOH HOH . I 6 HOH A 90 890 128 HOH HOH . I 6 HOH A 91 891 113 HOH HOH . I 6 HOH A 92 892 114 HOH HOH . I 6 HOH A 93 893 14 HOH HOH . I 6 HOH A 94 894 43 HOH HOH . I 6 HOH A 95 895 39 HOH HOH . I 6 HOH A 96 896 160 HOH HOH . I 6 HOH A 97 897 88 HOH HOH . I 6 HOH A 98 898 170 HOH HOH . I 6 HOH A 99 899 30 HOH HOH . I 6 HOH A 100 900 169 HOH HOH . I 6 HOH A 101 901 35 HOH HOH . I 6 HOH A 102 902 167 HOH HOH . I 6 HOH A 103 903 50 HOH HOH . I 6 HOH A 104 904 99 HOH HOH . I 6 HOH A 105 905 110 HOH HOH . I 6 HOH A 106 906 5 HOH HOH . I 6 HOH A 107 907 18 HOH HOH . I 6 HOH A 108 908 112 HOH HOH . I 6 HOH A 109 909 53 HOH HOH . I 6 HOH A 110 910 8 HOH HOH . I 6 HOH A 111 911 28 HOH HOH . I 6 HOH A 112 912 126 HOH HOH . I 6 HOH A 113 913 141 HOH HOH . I 6 HOH A 114 914 38 HOH HOH . I 6 HOH A 115 915 25 HOH HOH . I 6 HOH A 116 916 80 HOH HOH . I 6 HOH A 117 917 9 HOH HOH . I 6 HOH A 118 918 31 HOH HOH . I 6 HOH A 119 919 45 HOH HOH . I 6 HOH A 120 920 111 HOH HOH . I 6 HOH A 121 921 36 HOH HOH . I 6 HOH A 122 922 116 HOH HOH . I 6 HOH A 123 923 10 HOH HOH . I 6 HOH A 124 924 135 HOH HOH . I 6 HOH A 125 925 58 HOH HOH . I 6 HOH A 126 926 103 HOH HOH . I 6 HOH A 127 927 140 HOH HOH . I 6 HOH A 128 928 70 HOH HOH . I 6 HOH A 129 929 54 HOH HOH . I 6 HOH A 130 930 123 HOH HOH . I 6 HOH A 131 931 166 HOH HOH . I 6 HOH A 132 932 11 HOH HOH . I 6 HOH A 133 933 150 HOH HOH . I 6 HOH A 134 934 102 HOH HOH . I 6 HOH A 135 935 44 HOH HOH . I 6 HOH A 136 936 51 HOH HOH . I 6 HOH A 137 937 48 HOH HOH . I 6 HOH A 138 938 33 HOH HOH . I 6 HOH A 139 939 96 HOH HOH . I 6 HOH A 140 940 134 HOH HOH . I 6 HOH A 141 941 174 HOH HOH . I 6 HOH A 142 942 79 HOH HOH . I 6 HOH A 143 943 93 HOH HOH . I 6 HOH A 144 944 173 HOH HOH . I 6 HOH A 145 945 163 HOH HOH . I 6 HOH A 146 946 87 HOH HOH . I 6 HOH A 147 947 67 HOH HOH . I 6 HOH A 148 948 156 HOH HOH . I 6 HOH A 149 949 162 HOH HOH . I 6 HOH A 150 950 69 HOH HOH . I 6 HOH A 151 951 165 HOH HOH . I 6 HOH A 152 952 118 HOH HOH . I 6 HOH A 153 953 46 HOH HOH . I 6 HOH A 154 954 64 HOH HOH . I 6 HOH A 155 955 129 HOH HOH . I 6 HOH A 156 956 117 HOH HOH . I 6 HOH A 157 957 132 HOH HOH . I 6 HOH A 158 958 151 HOH HOH . I 6 HOH A 159 959 158 HOH HOH . I 6 HOH A 160 960 77 HOH HOH . I 6 HOH A 161 961 109 HOH HOH . I 6 HOH A 162 962 159 HOH HOH . I 6 HOH A 163 963 146 HOH HOH . I 6 HOH A 164 964 98 HOH HOH . I 6 HOH A 165 965 130 HOH HOH . I 6 HOH A 166 966 122 HOH HOH . I 6 HOH A 167 967 105 HOH HOH . I 6 HOH A 168 968 133 HOH HOH . I 6 HOH A 169 969 120 HOH HOH . I 6 HOH A 170 970 136 HOH HOH . I 6 HOH A 171 971 107 HOH HOH . I 6 HOH A 172 972 124 HOH HOH . I 6 HOH A 173 973 115 HOH HOH . I 6 HOH A 174 974 138 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 C10 L8C . . . B 2 -23.026 -41.244 35.034 1 44.07 ? C10 L8C 701 A 1 HETATM 2 C C13 L8C . . . B 2 -21.53 -41.246 34.705 1 49.19 ? C13 L8C 701 A 1 HETATM 3 C C17 L8C . . . B 2 -29.248 -40.84 34.973 1 61.39 ? C17 L8C 701 A 1 HETATM 4 C C01 L8C . . . B 2 -29.823 -38.645 32.179 1 56.7 ? C01 L8C 701 A 1 HETATM 5 C C03 L8C . . . B 2 -28.24 -38.557 33.717 1 47.35 ? C03 L8C 701 A 1 HETATM 6 C C04 L8C . . . B 2 -27.547 -39.325 34.849 1 48.82 ? C04 L8C 701 A 1 HETATM 7 C C06 L8C . . . B 2 -27.276 -41.246 35.92 1 51.15 ? C06 L8C 701 A 1 HETATM 8 C C07 L8C . . . B 2 -25.756 -41.235 35.629 1 49.28 ? C07 L8C 701 A 1 HETATM 9 C C08 L8C . . . B 2 -25.269 -41.835 34.427 1 47.6 ? C08 L8C 701 A 1 HETATM 10 C C09 L8C . . . B 2 -23.904 -41.82 34.143 1 44.6 ? C09 L8C 701 A 1 HETATM 11 C C11 L8C . . . B 2 -23.503 -40.636 36.255 1 43.18 ? C11 L8C 701 A 1 HETATM 12 C C12 L8C . . . B 2 -24.865 -40.642 36.528 1 45.18 ? C12 L8C 701 A 1 HETATM 13 C C18 L8C . . . B 2 -30.005 -40.135 33.829 1 57.71 ? C18 L8C 701 A 1 HETATM 14 N N02 L8C . . . B 2 -29.531 -38.916 33.427 1 59.22 ? N02 L8C 701 A 1 HETATM 15 N N05 L8C . . . B 2 -27.899 -40.641 34.933 1 54.62 ? N05 L8C 701 A 1 HETATM 16 N N15 L8C . . . B 2 -21.096 -41.461 33.293 1 47.06 ? N15 L8C 701 A 1 HETATM 17 O O14 L8C . . . B 2 -20.739 -41.076 35.518 1 56.88 ? O14 L8C 701 A 1 HETATM 18 O O16 L8C . . . B 2 -19.69 -41.467 32.967 1 52.64 ? O16 L8C 701 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 18 #