data_6PDD
#
_model_server_result.job_id            kDS66Zddy99VkpVOrKM1IQ 
_model_server_result.datetime_utc      '2024-11-14 21:08:11' 
_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          6pdd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":802}' 
#
_entry.id    6PDD 
#
_exptl.entry_id    6PDD 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            6PDD 
_cell.length_a            46.177 
_cell.length_b            57.005 
_cell.length_c            122.186 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6PDD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_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,E,F,G,H 
_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 
#
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
covale ? covale1 A C HIS 97 A HIS 603 1_555 A N ALY 98 A ALY 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale2 A C ALY 98 A ALY 604 1_555 A N THR 99 A THR 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
metalc ? metalc1 A SG CYS 34 A CYS 540 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? 
metalc ? metalc2 A SG CYS 37 A CYS 543 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? 
metalc ? metalc3 A NE2 HIS 50 A HIS 556 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? 
metalc ? metalc4 A SG CYS 54 A CYS 560 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? 
metalc ? metalc5 C NA NA . A NA 802 1_555 H O HOH . A HOH 924 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.087 ? 
metalc ? metalc6 C NA NA . A NA 802 1_555 H O HOH . A HOH 938 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.078 ? 
metalc ? metalc7 C NA NA . A NA 802 1_555 H O HOH . A HOH 1028 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.959 ? 
#
_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                     6PDD 
_atom_sites.fract_transf_matrix[1][1]    0.021656 
_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]    0.017542 
_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]    0.008184 
_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 ZN A 1 801 506 ZN ZN . 
C 3 NA A 1 802 507 NA NA . 
D 4 O9S A 1 803 1 O9S LIG . 
E 5 GOL A 1 804 1 GOL GOL . 
F 5 GOL A 1 805 2 GOL GOL . 
G 6 SO4 A 1 806 3 SO4 SO4 . 
H 7 HOH A 1 901 34 HOH HOH . 
H 7 HOH A 2 902 148 HOH HOH . 
H 7 HOH A 3 903 151 HOH HOH . 
H 7 HOH A 4 904 87 HOH HOH . 
H 7 HOH A 5 905 173 HOH HOH . 
H 7 HOH A 6 906 4 HOH HOH . 
H 7 HOH A 7 907 141 HOH HOH . 
H 7 HOH A 8 908 184 HOH HOH . 
H 7 HOH A 9 909 122 HOH HOH . 
H 7 HOH A 10 910 150 HOH HOH . 
H 7 HOH A 11 911 57 HOH HOH . 
H 7 HOH A 12 912 12 HOH HOH . 
H 7 HOH A 13 913 186 HOH HOH . 
H 7 HOH A 14 914 131 HOH HOH . 
H 7 HOH A 15 915 20 HOH HOH . 
H 7 HOH A 16 916 1 HOH HOH . 
H 7 HOH A 17 917 45 HOH HOH . 
H 7 HOH A 18 918 89 HOH HOH . 
H 7 HOH A 19 919 191 HOH HOH . 
H 7 HOH A 20 920 67 HOH HOH . 
H 7 HOH A 21 921 200 HOH HOH . 
H 7 HOH A 22 922 117 HOH HOH . 
H 7 HOH A 23 923 176 HOH HOH . 
H 7 HOH A 24 924 164 HOH HOH . 
H 7 HOH A 25 925 44 HOH HOH . 
H 7 HOH A 26 926 14 HOH HOH . 
H 7 HOH A 27 927 78 HOH HOH . 
H 7 HOH A 28 928 8 HOH HOH . 
H 7 HOH A 29 929 16 HOH HOH . 
H 7 HOH A 30 930 53 HOH HOH . 
H 7 HOH A 31 931 40 HOH HOH . 
H 7 HOH A 32 932 6 HOH HOH . 
H 7 HOH A 33 933 5 HOH HOH . 
H 7 HOH A 34 934 138 HOH HOH . 
H 7 HOH A 35 935 21 HOH HOH . 
H 7 HOH A 36 936 72 HOH HOH . 
H 7 HOH A 37 937 9 HOH HOH . 
H 7 HOH A 38 938 165 HOH HOH . 
H 7 HOH A 39 939 59 HOH HOH . 
H 7 HOH A 40 940 13 HOH HOH . 
H 7 HOH A 41 941 63 HOH HOH . 
H 7 HOH A 42 942 43 HOH HOH . 
H 7 HOH A 43 943 3 HOH HOH . 
H 7 HOH A 44 944 170 HOH HOH . 
H 7 HOH A 45 945 142 HOH HOH . 
H 7 HOH A 46 946 127 HOH HOH . 
H 7 HOH A 47 947 46 HOH HOH . 
H 7 HOH A 48 948 30 HOH HOH . 
H 7 HOH A 49 949 206 HOH HOH . 
H 7 HOH A 50 950 32 HOH HOH . 
H 7 HOH A 51 951 2 HOH HOH . 
H 7 HOH A 52 952 39 HOH HOH . 
H 7 HOH A 53 953 197 HOH HOH . 
H 7 HOH A 54 954 11 HOH HOH . 
H 7 HOH A 55 955 112 HOH HOH . 
H 7 HOH A 56 956 194 HOH HOH . 
H 7 HOH A 57 957 140 HOH HOH . 
H 7 HOH A 58 958 167 HOH HOH . 
H 7 HOH A 59 959 198 HOH HOH . 
H 7 HOH A 60 960 84 HOH HOH . 
H 7 HOH A 61 961 183 HOH HOH . 
H 7 HOH A 62 962 54 HOH HOH . 
H 7 HOH A 63 963 91 HOH HOH . 
H 7 HOH A 64 964 132 HOH HOH . 
H 7 HOH A 65 965 28 HOH HOH . 
H 7 HOH A 66 966 201 HOH HOH . 
H 7 HOH A 67 967 27 HOH HOH . 
H 7 HOH A 68 968 204 HOH HOH . 
H 7 HOH A 69 969 159 HOH HOH . 
H 7 HOH A 70 970 29 HOH HOH . 
H 7 HOH A 71 971 52 HOH HOH . 
H 7 HOH A 72 972 179 HOH HOH . 
H 7 HOH A 73 973 74 HOH HOH . 
H 7 HOH A 74 974 76 HOH HOH . 
H 7 HOH A 75 975 41 HOH HOH . 
H 7 HOH A 76 976 35 HOH HOH . 
H 7 HOH A 77 977 187 HOH HOH . 
H 7 HOH A 78 978 100 HOH HOH . 
H 7 HOH A 79 979 104 HOH HOH . 
H 7 HOH A 80 980 18 HOH HOH . 
H 7 HOH A 81 981 81 HOH HOH . 
H 7 HOH A 82 982 19 HOH HOH . 
H 7 HOH A 83 983 107 HOH HOH . 
H 7 HOH A 84 984 17 HOH HOH . 
H 7 HOH A 85 985 202 HOH HOH . 
H 7 HOH A 86 986 152 HOH HOH . 
H 7 HOH A 87 987 156 HOH HOH . 
H 7 HOH A 88 988 55 HOH HOH . 
H 7 HOH A 89 989 61 HOH HOH . 
H 7 HOH A 90 990 137 HOH HOH . 
H 7 HOH A 91 991 56 HOH HOH . 
H 7 HOH A 92 992 92 HOH HOH . 
H 7 HOH A 93 993 77 HOH HOH . 
H 7 HOH A 94 994 98 HOH HOH . 
H 7 HOH A 95 995 108 HOH HOH . 
H 7 HOH A 96 996 60 HOH HOH . 
H 7 HOH A 97 997 31 HOH HOH . 
H 7 HOH A 98 998 93 HOH HOH . 
H 7 HOH A 99 999 23 HOH HOH . 
H 7 HOH A 100 1000 36 HOH HOH . 
H 7 HOH A 101 1001 199 HOH HOH . 
H 7 HOH A 102 1002 158 HOH HOH . 
H 7 HOH A 103 1003 69 HOH HOH . 
H 7 HOH A 104 1004 99 HOH HOH . 
H 7 HOH A 105 1005 149 HOH HOH . 
H 7 HOH A 106 1006 80 HOH HOH . 
H 7 HOH A 107 1007 96 HOH HOH . 
H 7 HOH A 108 1008 37 HOH HOH . 
H 7 HOH A 109 1009 75 HOH HOH . 
H 7 HOH A 110 1010 22 HOH HOH . 
H 7 HOH A 111 1011 106 HOH HOH . 
H 7 HOH A 112 1012 65 HOH HOH . 
H 7 HOH A 113 1013 50 HOH HOH . 
H 7 HOH A 114 1014 82 HOH HOH . 
H 7 HOH A 115 1015 62 HOH HOH . 
H 7 HOH A 116 1016 189 HOH HOH . 
H 7 HOH A 117 1017 71 HOH HOH . 
H 7 HOH A 118 1018 73 HOH HOH . 
H 7 HOH A 119 1019 86 HOH HOH . 
H 7 HOH A 120 1020 163 HOH HOH . 
H 7 HOH A 121 1021 33 HOH HOH . 
H 7 HOH A 122 1022 49 HOH HOH . 
H 7 HOH A 123 1023 121 HOH HOH . 
H 7 HOH A 124 1024 135 HOH HOH . 
H 7 HOH A 125 1025 7 HOH HOH . 
H 7 HOH A 126 1026 42 HOH HOH . 
H 7 HOH A 127 1027 129 HOH HOH . 
H 7 HOH A 128 1028 111 HOH HOH . 
H 7 HOH A 129 1029 114 HOH HOH . 
H 7 HOH A 130 1030 25 HOH HOH . 
H 7 HOH A 131 1031 116 HOH HOH . 
H 7 HOH A 132 1032 68 HOH HOH . 
H 7 HOH A 133 1033 125 HOH HOH . 
H 7 HOH A 134 1034 123 HOH HOH . 
H 7 HOH A 135 1035 143 HOH HOH . 
H 7 HOH A 136 1036 205 HOH HOH . 
H 7 HOH A 137 1037 178 HOH HOH . 
H 7 HOH A 138 1038 154 HOH HOH . 
H 7 HOH A 139 1039 134 HOH HOH . 
H 7 HOH A 140 1040 105 HOH HOH . 
H 7 HOH A 141 1041 47 HOH HOH . 
H 7 HOH A 142 1042 169 HOH HOH . 
H 7 HOH A 143 1043 146 HOH HOH . 
H 7 HOH A 144 1044 79 HOH HOH . 
H 7 HOH A 145 1045 26 HOH HOH . 
H 7 HOH A 146 1046 64 HOH HOH . 
H 7 HOH A 147 1047 113 HOH HOH . 
H 7 HOH A 148 1048 38 HOH HOH . 
H 7 HOH A 149 1049 115 HOH HOH . 
H 7 HOH A 150 1050 15 HOH HOH . 
H 7 HOH A 151 1051 95 HOH HOH . 
H 7 HOH A 152 1052 139 HOH HOH . 
H 7 HOH A 153 1053 160 HOH HOH . 
H 7 HOH A 154 1054 103 HOH HOH . 
H 7 HOH A 155 1055 192 HOH HOH . 
H 7 HOH A 156 1056 110 HOH HOH . 
H 7 HOH A 157 1057 66 HOH HOH . 
H 7 HOH A 158 1058 102 HOH HOH . 
H 7 HOH A 159 1059 182 HOH HOH . 
H 7 HOH A 160 1060 128 HOH HOH . 
H 7 HOH A 161 1061 144 HOH HOH . 
H 7 HOH A 162 1062 171 HOH HOH . 
H 7 HOH A 163 1063 168 HOH HOH . 
H 7 HOH A 164 1064 180 HOH HOH . 
H 7 HOH A 165 1065 155 HOH HOH . 
H 7 HOH A 166 1066 203 HOH HOH . 
H 7 HOH A 167 1067 175 HOH HOH . 
H 7 HOH A 168 1068 97 HOH HOH . 
H 7 HOH A 169 1069 90 HOH HOH . 
H 7 HOH A 170 1070 174 HOH HOH . 
H 7 HOH A 171 1071 109 HOH HOH . 
H 7 HOH A 172 1072 130 HOH HOH . 
H 7 HOH A 173 1073 85 HOH HOH . 
H 7 HOH A 174 1074 51 HOH HOH . 
H 7 HOH A 175 1075 161 HOH HOH . 
H 7 HOH A 176 1076 153 HOH HOH . 
H 7 HOH A 177 1077 188 HOH HOH . 
H 7 HOH A 178 1078 193 HOH HOH . 
H 7 HOH A 179 1079 172 HOH HOH . 
H 7 HOH A 180 1080 181 HOH HOH . 
H 7 HOH A 181 1081 124 HOH HOH . 
H 7 HOH A 182 1082 94 HOH HOH . 
H 7 HOH A 183 1083 118 HOH HOH . 
H 7 HOH A 184 1084 195 HOH HOH . 
H 7 HOH A 185 1085 157 HOH HOH . 
H 7 HOH A 186 1086 185 HOH HOH . 
H 7 HOH A 187 1087 166 HOH HOH . 
H 7 HOH A 188 1088 120 HOH HOH . 
H 7 HOH A 189 1089 196 HOH HOH . 
H 7 HOH A 190 1090 136 HOH HOH . 
H 7 HOH A 191 1091 119 HOH HOH . 
H 7 HOH A 192 1092 101 HOH HOH . 
H 7 HOH A 193 1093 147 HOH HOH . 
H 7 HOH A 194 1094 145 HOH HOH . 
H 7 HOH A 195 1095 190 HOH HOH . 
H 7 HOH A 196 1096 177 HOH HOH . 
H 7 HOH A 197 1097 126 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         C 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               -7.163 
_atom_site.Cartn_y               12.221 
_atom_site.Cartn_z               -3.206 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        9.44 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           802 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           1 
#