data_4YWD
#
_model_server_result.job_id            Q-poHgsDX3ZOp67cKqb9-w 
_model_server_result.datetime_utc      '2024-10-27 14:29:50' 
_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          4ywd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":703}' 
#
_entry.id    4YWD 
#
_exptl.entry_id    4YWD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              22.99 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'SODIUM ION' 
_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          109.16 
_cell.angle_gamma         90 
_cell.entry_id            4YWD 
_cell.length_a            45.34 
_cell.length_b            119.405 
_cell.length_c            61.015 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4YWD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 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 
_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                             D 
_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 OE2 GLU 63 A GLU 63 1_555 C MN MN . A MN 702 2_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? 
metalc ? metalc2 A O LEU 79 A LEU 79 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? 
metalc ? metalc3 A O ASN 208 A ASN 208 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? 
metalc ? metalc4 A NZ LYS 244 A LYS 244 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? 
metalc ? metalc5 A NE2 HIS 264 A HIS 264 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? 
metalc ? metalc6 A OD1 ASP 311 A ASP 311 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? 
metalc ? metalc7 A NE2 HIS 502 A HIS 502 1_555 C MN MN . A MN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc8 A OE2 GLU 607 A GLU 607 1_555 C MN MN . A MN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? 
metalc ? metalc9 B MN MN . A MN 701 1_555 E N1 NTM . A NTM 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? 
metalc ? metalc10 B MN MN . A MN 701 1_555 E O1 NTM . A NTM 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? 
metalc ? metalc11 B MN MN . A MN 701 1_555 F O HOH . A HOH 979 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? 
metalc ? metalc12 C MN MN . A MN 702 1_555 F O HOH . A HOH 862 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? 
metalc ? metalc13 C MN MN . A MN 702 1_555 F O HOH . A HOH 924 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
metalc ? metalc14 C MN MN . A MN 702 1_555 F O HOH . A HOH 938 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? 
metalc ? metalc15 D NA NA . A NA 703 1_555 F O HOH . A HOH 847 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
metalc ? metalc16 D NA NA . A NA 703 1_555 F O HOH . A HOH 944 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? 
#
_chem_comp.formula           'Na 1' 
_chem_comp.formula_weight    22.99 
_chem_comp.id                NA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'SODIUM ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     4YWD 
_atom_sites.fract_transf_matrix[1][1]    0.022056 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.007665 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008375 
_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]    0.017351 
_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 MN A 1 701 701 MN MN . 
C 2 MN A 1 702 702 MN MN . 
D 3 NA A 1 703 703 NA NA . 
E 4 NTM A 1 704 704 NTM NTM . 
F 5 HOH A 1 801 1020 HOH HOH . 
F 5 HOH A 2 802 881 HOH HOH . 
F 5 HOH A 3 803 841 HOH HOH . 
F 5 HOH A 4 804 874 HOH HOH . 
F 5 HOH A 5 805 830 HOH HOH . 
F 5 HOH A 6 806 888 HOH HOH . 
F 5 HOH A 7 807 949 HOH HOH . 
F 5 HOH A 8 808 946 HOH HOH . 
F 5 HOH A 9 809 970 HOH HOH . 
F 5 HOH A 10 810 806 HOH HOH . 
F 5 HOH A 11 811 833 HOH HOH . 
F 5 HOH A 12 812 892 HOH HOH . 
F 5 HOH A 13 813 840 HOH HOH . 
F 5 HOH A 14 814 847 HOH HOH . 
F 5 HOH A 15 815 908 HOH HOH . 
F 5 HOH A 16 816 842 HOH HOH . 
F 5 HOH A 17 817 834 HOH HOH . 
F 5 HOH A 18 818 818 HOH HOH . 
F 5 HOH A 19 819 968 HOH HOH . 
F 5 HOH A 20 820 849 HOH HOH . 
F 5 HOH A 21 821 904 HOH HOH . 
F 5 HOH A 22 822 999 HOH HOH . 
F 5 HOH A 23 823 938 HOH HOH . 
F 5 HOH A 24 824 998 HOH HOH . 
F 5 HOH A 25 825 898 HOH HOH . 
F 5 HOH A 26 826 966 HOH HOH . 
F 5 HOH A 27 827 911 HOH HOH . 
F 5 HOH A 28 828 845 HOH HOH . 
F 5 HOH A 29 829 1026 HOH HOH . 
F 5 HOH A 30 830 1009 HOH HOH . 
F 5 HOH A 31 831 965 HOH HOH . 
F 5 HOH A 32 832 916 HOH HOH . 
F 5 HOH A 33 833 891 HOH HOH . 
F 5 HOH A 34 834 816 HOH HOH . 
F 5 HOH A 35 835 876 HOH HOH . 
F 5 HOH A 36 836 939 HOH HOH . 
F 5 HOH A 37 837 860 HOH HOH . 
F 5 HOH A 38 838 935 HOH HOH . 
F 5 HOH A 39 839 947 HOH HOH . 
F 5 HOH A 40 840 905 HOH HOH . 
F 5 HOH A 41 841 953 HOH HOH . 
F 5 HOH A 42 842 853 HOH HOH . 
F 5 HOH A 43 843 922 HOH HOH . 
F 5 HOH A 44 844 865 HOH HOH . 
F 5 HOH A 45 845 886 HOH HOH . 
F 5 HOH A 46 846 927 HOH HOH . 
F 5 HOH A 47 847 942 HOH HOH . 
F 5 HOH A 48 848 971 HOH HOH . 
F 5 HOH A 49 849 827 HOH HOH . 
F 5 HOH A 50 850 808 HOH HOH . 
F 5 HOH A 51 851 825 HOH HOH . 
F 5 HOH A 52 852 974 HOH HOH . 
F 5 HOH A 53 853 829 HOH HOH . 
F 5 HOH A 54 854 880 HOH HOH . 
F 5 HOH A 55 855 875 HOH HOH . 
F 5 HOH A 56 856 851 HOH HOH . 
F 5 HOH A 57 857 839 HOH HOH . 
F 5 HOH A 58 858 858 HOH HOH . 
F 5 HOH A 59 859 859 HOH HOH . 
F 5 HOH A 60 860 975 HOH HOH . 
F 5 HOH A 61 861 985 HOH HOH . 
F 5 HOH A 62 862 1015 HOH HOH . 
F 5 HOH A 63 863 977 HOH HOH . 
F 5 HOH A 64 864 823 HOH HOH . 
F 5 HOH A 65 865 979 HOH HOH . 
F 5 HOH A 66 866 894 HOH HOH . 
F 5 HOH A 67 867 882 HOH HOH . 
F 5 HOH A 68 868 890 HOH HOH . 
F 5 HOH A 69 869 862 HOH HOH . 
F 5 HOH A 70 870 993 HOH HOH . 
F 5 HOH A 71 871 921 HOH HOH . 
F 5 HOH A 72 872 909 HOH HOH . 
F 5 HOH A 73 873 1008 HOH HOH . 
F 5 HOH A 74 874 906 HOH HOH . 
F 5 HOH A 75 875 835 HOH HOH . 
F 5 HOH A 76 876 1017 HOH HOH . 
F 5 HOH A 77 877 914 HOH HOH . 
F 5 HOH A 78 878 944 HOH HOH . 
F 5 HOH A 79 879 930 HOH HOH . 
F 5 HOH A 80 880 813 HOH HOH . 
F 5 HOH A 81 881 919 HOH HOH . 
F 5 HOH A 82 882 929 HOH HOH . 
F 5 HOH A 83 883 843 HOH HOH . 
F 5 HOH A 84 884 1028 HOH HOH . 
F 5 HOH A 85 885 855 HOH HOH . 
F 5 HOH A 86 886 846 HOH HOH . 
F 5 HOH A 87 887 804 HOH HOH . 
F 5 HOH A 88 888 831 HOH HOH . 
F 5 HOH A 89 889 907 HOH HOH . 
F 5 HOH A 90 890 817 HOH HOH . 
F 5 HOH A 91 891 844 HOH HOH . 
F 5 HOH A 92 892 805 HOH HOH . 
F 5 HOH A 93 893 869 HOH HOH . 
F 5 HOH A 94 894 820 HOH HOH . 
F 5 HOH A 95 895 807 HOH HOH . 
F 5 HOH A 96 896 879 HOH HOH . 
F 5 HOH A 97 897 824 HOH HOH . 
F 5 HOH A 98 898 854 HOH HOH . 
F 5 HOH A 99 899 1004 HOH HOH . 
F 5 HOH A 100 900 884 HOH HOH . 
F 5 HOH A 101 901 941 HOH HOH . 
F 5 HOH A 102 902 832 HOH HOH . 
F 5 HOH A 103 903 828 HOH HOH . 
F 5 HOH A 104 904 815 HOH HOH . 
F 5 HOH A 105 905 837 HOH HOH . 
F 5 HOH A 106 906 871 HOH HOH . 
F 5 HOH A 107 907 926 HOH HOH . 
F 5 HOH A 108 908 885 HOH HOH . 
F 5 HOH A 109 909 934 HOH HOH . 
F 5 HOH A 110 910 1018 HOH HOH . 
F 5 HOH A 111 911 868 HOH HOH . 
F 5 HOH A 112 912 852 HOH HOH . 
F 5 HOH A 113 913 952 HOH HOH . 
F 5 HOH A 114 914 1014 HOH HOH . 
F 5 HOH A 115 915 872 HOH HOH . 
F 5 HOH A 116 916 956 HOH HOH . 
F 5 HOH A 117 917 981 HOH HOH . 
F 5 HOH A 118 918 803 HOH HOH . 
F 5 HOH A 119 919 920 HOH HOH . 
F 5 HOH A 120 920 1012 HOH HOH . 
F 5 HOH A 121 921 1002 HOH HOH . 
F 5 HOH A 122 922 955 HOH HOH . 
F 5 HOH A 123 923 838 HOH HOH . 
F 5 HOH A 124 924 889 HOH HOH . 
F 5 HOH A 125 925 857 HOH HOH . 
F 5 HOH A 126 926 959 HOH HOH . 
F 5 HOH A 127 927 814 HOH HOH . 
F 5 HOH A 128 928 1031 HOH HOH . 
F 5 HOH A 129 929 960 HOH HOH . 
F 5 HOH A 130 930 925 HOH HOH . 
F 5 HOH A 131 931 984 HOH HOH . 
F 5 HOH A 132 932 924 HOH HOH . 
F 5 HOH A 133 933 950 HOH HOH . 
F 5 HOH A 134 934 1032 HOH HOH . 
F 5 HOH A 135 935 954 HOH HOH . 
F 5 HOH A 136 936 936 HOH HOH . 
F 5 HOH A 137 937 836 HOH HOH . 
F 5 HOH A 138 938 901 HOH HOH . 
F 5 HOH A 139 939 873 HOH HOH . 
F 5 HOH A 140 940 987 HOH HOH . 
F 5 HOH A 141 941 811 HOH HOH . 
F 5 HOH A 142 942 822 HOH HOH . 
F 5 HOH A 143 943 899 HOH HOH . 
F 5 HOH A 144 944 943 HOH HOH . 
F 5 HOH A 145 945 819 HOH HOH . 
F 5 HOH A 146 946 826 HOH HOH . 
F 5 HOH A 147 947 1029 HOH HOH . 
F 5 HOH A 148 948 964 HOH HOH . 
F 5 HOH A 149 949 856 HOH HOH . 
F 5 HOH A 150 950 864 HOH HOH . 
F 5 HOH A 151 951 821 HOH HOH . 
F 5 HOH A 152 952 883 HOH HOH . 
F 5 HOH A 153 953 962 HOH HOH . 
F 5 HOH A 154 954 877 HOH HOH . 
F 5 HOH A 155 955 1010 HOH HOH . 
F 5 HOH A 156 956 809 HOH HOH . 
F 5 HOH A 157 957 923 HOH HOH . 
F 5 HOH A 158 958 967 HOH HOH . 
F 5 HOH A 159 959 995 HOH HOH . 
F 5 HOH A 160 960 893 HOH HOH . 
F 5 HOH A 161 961 990 HOH HOH . 
F 5 HOH A 162 962 812 HOH HOH . 
F 5 HOH A 163 963 866 HOH HOH . 
F 5 HOH A 164 964 996 HOH HOH . 
F 5 HOH A 165 965 861 HOH HOH . 
F 5 HOH A 166 966 1025 HOH HOH . 
F 5 HOH A 167 967 980 HOH HOH . 
F 5 HOH A 168 968 802 HOH HOH . 
F 5 HOH A 169 969 991 HOH HOH . 
F 5 HOH A 170 970 933 HOH HOH . 
F 5 HOH A 171 971 870 HOH HOH . 
F 5 HOH A 172 972 1001 HOH HOH . 
F 5 HOH A 173 973 928 HOH HOH . 
F 5 HOH A 174 974 1016 HOH HOH . 
F 5 HOH A 175 975 810 HOH HOH . 
F 5 HOH A 176 976 948 HOH HOH . 
F 5 HOH A 177 977 969 HOH HOH . 
F 5 HOH A 178 978 850 HOH HOH . 
F 5 HOH A 179 979 801 HOH HOH . 
F 5 HOH A 180 980 912 HOH HOH . 
F 5 HOH A 181 981 973 HOH HOH . 
F 5 HOH A 182 982 958 HOH HOH . 
F 5 HOH A 183 983 932 HOH HOH . 
F 5 HOH A 184 984 1007 HOH HOH . 
F 5 HOH A 185 985 903 HOH HOH . 
F 5 HOH A 186 986 951 HOH HOH . 
F 5 HOH A 187 987 963 HOH HOH . 
F 5 HOH A 188 988 989 HOH HOH . 
F 5 HOH A 189 989 913 HOH HOH . 
F 5 HOH A 190 990 887 HOH HOH . 
F 5 HOH A 191 991 992 HOH HOH . 
F 5 HOH A 192 992 931 HOH HOH . 
F 5 HOH A 193 993 863 HOH HOH . 
F 5 HOH A 194 994 1019 HOH HOH . 
F 5 HOH A 195 995 945 HOH HOH . 
F 5 HOH A 196 996 1011 HOH HOH . 
F 5 HOH A 197 997 1022 HOH HOH . 
F 5 HOH A 198 998 961 HOH HOH . 
F 5 HOH A 199 999 918 HOH HOH . 
F 5 HOH A 200 1000 897 HOH HOH . 
F 5 HOH A 201 1001 1005 HOH HOH . 
F 5 HOH A 202 1002 986 HOH HOH . 
F 5 HOH A 203 1003 1030 HOH HOH . 
F 5 HOH A 204 1004 895 HOH HOH . 
F 5 HOH A 205 1005 972 HOH HOH . 
F 5 HOH A 206 1006 982 HOH HOH . 
F 5 HOH A 207 1007 1006 HOH HOH . 
F 5 HOH A 208 1008 957 HOH HOH . 
F 5 HOH A 209 1009 915 HOH HOH . 
F 5 HOH A 210 1010 1000 HOH HOH . 
F 5 HOH A 211 1011 848 HOH HOH . 
F 5 HOH A 212 1012 1027 HOH HOH . 
F 5 HOH A 213 1013 940 HOH HOH . 
F 5 HOH A 214 1014 997 HOH HOH . 
F 5 HOH A 215 1015 1013 HOH HOH . 
F 5 HOH A 216 1016 867 HOH HOH . 
F 5 HOH A 217 1017 1003 HOH HOH . 
F 5 HOH A 218 1018 917 HOH HOH . 
F 5 HOH A 219 1019 902 HOH HOH . 
F 5 HOH A 220 1020 1024 HOH HOH . 
F 5 HOH A 221 1021 1021 HOH HOH . 
F 5 HOH A 222 1022 1023 HOH HOH . 
F 5 HOH A 223 1023 878 HOH HOH . 
F 5 HOH A 224 1024 994 HOH HOH . 
F 5 HOH A 225 1025 896 HOH HOH . 
F 5 HOH A 226 1026 983 HOH HOH . 
F 5 HOH A 227 1027 976 HOH HOH . 
F 5 HOH A 228 1028 937 HOH HOH . 
F 5 HOH A 229 1029 978 HOH HOH . 
F 5 HOH A 230 1030 910 HOH HOH . 
F 5 HOH A 231 1031 900 HOH HOH . 
F 5 HOH A 232 1032 988 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           NA 
_atom_site.label_atom_id         NA 
_atom_site.label_comp_id         NA 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         D 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               5.12 
_atom_site.Cartn_y               -23.87 
_atom_site.Cartn_z               8.413 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        48.87 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           703 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              21 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    19 
_model_server_stats.query_time_ms           318 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           1 
#