data_6EK6
#
_model_server_result.job_id            lS4edjKF6-kEGX4oB0e9Cg 
_model_server_result.datetime_utc      '2024-11-08 07:13:30' 
_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          6ek6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":803}' 
#
_entry.id    6EK6 
#
_exptl.entry_id    6EK6 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              58.693 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NICKEL (II) 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         120 
_cell.entry_id            6EK6 
_cell.length_a            141.41 
_cell.length_b            141.41 
_cell.length_c            150.95 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6EK6 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q 
_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                      4 
_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
disulf ? disulf1 A SG CYS 409 A CYS 708 1_555 A SG CYS 426 A CYS 725 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
metalc ? metalc1 A OD1 ASN 67 A ASN 91 1_555 C MN MN . A MN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? 
metalc ? metalc2 A O LEU 114 A LEU 413 1_555 C MN MN . A MN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.695 ? 
metalc ? metalc3 A O THR 117 A THR 416 1_555 C MN MN . A MN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? 
metalc ? metalc4 A NE2 HIS 200 A HIS 499 1_555 D NI NI . A NI 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? 
metalc ? metalc5 A OE2 GLU 202 A GLU 501 1_555 D NI NI . A NI 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc6 A SG CYS 393 A CYS 692 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? 
metalc ? metalc7 A SG CYS 396 A CYS 695 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? 
metalc ? metalc8 A SG CYS 416 A CYS 715 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? 
metalc ? metalc9 A ND1 HIS 419 A HIS 718 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
metalc ? metalc10 C MN MN . A MN 802 1_555 Q O HOH . A HOH 937 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
metalc ? metalc11 D NI NI . A NI 803 1_555 E N7 90V . A 90V 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.947 ? 
metalc ? metalc12 D NI NI . A NI 803 1_555 E O11 90V . A 90V 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? 
metalc ? metalc13 D NI NI . A NI 803 1_555 Q O HOH . A HOH 938 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? 
#
_chem_comp.formula           'Ni 2' 
_chem_comp.formula_weight    58.693 
_chem_comp.id                NI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'NICKEL (II) ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     6EK6 
_atom_sites.fract_transf_matrix[1][1]    0.007072 
_atom_sites.fract_transf_matrix[1][2]    0.004083 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008166 
_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]    0.006625 
_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 1 801 800 ZN ZN . 
C 3 MN A 1 802 801 MN MN . 
D 4 NI A 1 803 802 NI NI . 
E 5 90V A 1 804 1 90V 195 . 
F 6 DMS A 1 805 1 DMS DMS . 
G 6 DMS A 1 806 2 DMS DMS . 
H 6 DMS A 1 807 3 DMS DMS . 
I 6 DMS A 1 808 4 DMS DMS . 
J 7 EDO A 1 809 1 EDO EDO . 
K 7 EDO A 1 810 2 EDO EDO . 
L 7 EDO A 1 811 3 EDO EDO . 
M 7 EDO A 1 812 4 EDO EDO . 
N 7 EDO A 1 813 5 EDO EDO . 
O 7 EDO A 1 814 6 EDO EDO . 
P 7 EDO A 1 815 7 EDO EDO . 
Q 8 HOH A 1 901 24 HOH HOH . 
Q 8 HOH A 2 902 18 HOH HOH . 
Q 8 HOH A 3 903 46 HOH HOH . 
Q 8 HOH A 4 904 25 HOH HOH . 
Q 8 HOH A 5 905 50 HOH HOH . 
Q 8 HOH A 6 906 35 HOH HOH . 
Q 8 HOH A 7 907 125 HOH HOH . 
Q 8 HOH A 8 908 40 HOH HOH . 
Q 8 HOH A 9 909 56 HOH HOH . 
Q 8 HOH A 10 910 52 HOH HOH . 
Q 8 HOH A 11 911 115 HOH HOH . 
Q 8 HOH A 12 912 19 HOH HOH . 
Q 8 HOH A 13 913 57 HOH HOH . 
Q 8 HOH A 14 914 25 HOH HOH . 
Q 8 HOH A 15 915 7 HOH HOH . 
Q 8 HOH A 16 916 114 HOH HOH . 
Q 8 HOH A 17 917 41 HOH HOH . 
Q 8 HOH A 18 918 154 HOH HOH . 
Q 8 HOH A 19 919 63 HOH HOH . 
Q 8 HOH A 20 920 60 HOH HOH . 
Q 8 HOH A 21 921 72 HOH HOH . 
Q 8 HOH A 22 922 29 HOH HOH . 
Q 8 HOH A 23 923 5 HOH HOH . 
Q 8 HOH A 24 924 17 HOH HOH . 
Q 8 HOH A 25 925 143 HOH HOH . 
Q 8 HOH A 26 926 41 HOH HOH . 
Q 8 HOH A 27 927 91 HOH HOH . 
Q 8 HOH A 28 928 11 HOH HOH . 
Q 8 HOH A 29 929 172 HOH HOH . 
Q 8 HOH A 30 930 31 HOH HOH . 
Q 8 HOH A 31 931 81 HOH HOH . 
Q 8 HOH A 32 932 45 HOH HOH . 
Q 8 HOH A 33 933 34 HOH HOH . 
Q 8 HOH A 34 934 105 HOH HOH . 
Q 8 HOH A 35 935 50 HOH HOH . 
Q 8 HOH A 36 936 54 HOH HOH . 
Q 8 HOH A 37 937 3 HOH HOH . 
Q 8 HOH A 38 938 1 HOH HOH . 
Q 8 HOH A 39 939 27 HOH HOH . 
Q 8 HOH A 40 940 101 HOH HOH . 
Q 8 HOH A 41 941 13 HOH HOH . 
Q 8 HOH A 42 942 61 HOH HOH . 
Q 8 HOH A 43 943 56 HOH HOH . 
Q 8 HOH A 44 944 17 HOH HOH . 
Q 8 HOH A 45 945 53 HOH HOH . 
Q 8 HOH A 46 946 19 HOH HOH . 
Q 8 HOH A 47 947 15 HOH HOH . 
Q 8 HOH A 48 948 26 HOH HOH . 
Q 8 HOH A 49 949 26 HOH HOH . 
Q 8 HOH A 50 950 117 HOH HOH . 
Q 8 HOH A 51 951 8 HOH HOH . 
Q 8 HOH A 52 952 86 HOH HOH . 
Q 8 HOH A 53 953 14 HOH HOH . 
Q 8 HOH A 54 954 58 HOH HOH . 
Q 8 HOH A 55 955 63 HOH HOH . 
Q 8 HOH A 56 956 47 HOH HOH . 
Q 8 HOH A 57 957 16 HOH HOH . 
Q 8 HOH A 58 958 185 HOH HOH . 
Q 8 HOH A 59 959 70 HOH HOH . 
Q 8 HOH A 60 960 21 HOH HOH . 
Q 8 HOH A 61 961 12 HOH HOH . 
Q 8 HOH A 62 962 21 HOH HOH . 
Q 8 HOH A 63 963 132 HOH HOH . 
Q 8 HOH A 64 964 44 HOH HOH . 
Q 8 HOH A 65 965 175 HOH HOH . 
Q 8 HOH A 66 966 2 HOH HOH . 
Q 8 HOH A 67 967 160 HOH HOH . 
Q 8 HOH A 68 968 11 HOH HOH . 
Q 8 HOH A 69 969 118 HOH HOH . 
Q 8 HOH A 70 970 58 HOH HOH . 
Q 8 HOH A 71 971 31 HOH HOH . 
Q 8 HOH A 72 972 56 HOH HOH . 
Q 8 HOH A 73 973 42 HOH HOH . 
Q 8 HOH A 74 974 27 HOH HOH . 
Q 8 HOH A 75 975 26 HOH HOH . 
Q 8 HOH A 76 976 69 HOH HOH . 
Q 8 HOH A 77 977 4 HOH HOH . 
Q 8 HOH A 78 978 22 HOH HOH . 
Q 8 HOH A 79 979 44 HOH HOH . 
Q 8 HOH A 80 980 47 HOH HOH . 
Q 8 HOH A 81 981 8 HOH HOH . 
Q 8 HOH A 82 982 76 HOH HOH . 
Q 8 HOH A 83 983 5 HOH HOH . 
Q 8 HOH A 84 984 60 HOH HOH . 
Q 8 HOH A 85 985 52 HOH HOH . 
Q 8 HOH A 86 986 155 HOH HOH . 
Q 8 HOH A 87 987 42 HOH HOH . 
Q 8 HOH A 88 988 91 HOH HOH . 
Q 8 HOH A 89 989 4 HOH HOH . 
Q 8 HOH A 90 990 25 HOH HOH . 
Q 8 HOH A 91 991 17 HOH HOH . 
Q 8 HOH A 92 992 45 HOH HOH . 
Q 8 HOH A 93 993 108 HOH HOH . 
Q 8 HOH A 94 994 28 HOH HOH . 
Q 8 HOH A 95 995 45 HOH HOH . 
Q 8 HOH A 96 996 85 HOH HOH . 
Q 8 HOH A 97 997 36 HOH HOH . 
Q 8 HOH A 98 998 23 HOH HOH . 
Q 8 HOH A 99 999 74 HOH HOH . 
Q 8 HOH A 100 1000 20 HOH HOH . 
Q 8 HOH A 101 1001 37 HOH HOH . 
Q 8 HOH A 102 1002 43 HOH HOH . 
Q 8 HOH A 103 1003 220 HOH HOH . 
Q 8 HOH A 104 1004 79 HOH HOH . 
Q 8 HOH A 105 1005 8 HOH HOH . 
Q 8 HOH A 106 1006 116 HOH HOH . 
Q 8 HOH A 107 1007 40 HOH HOH . 
Q 8 HOH A 108 1008 7 HOH HOH . 
Q 8 HOH A 109 1009 78 HOH HOH . 
Q 8 HOH A 110 1010 132 HOH HOH . 
Q 8 HOH A 111 1011 13 HOH HOH . 
Q 8 HOH A 112 1012 110 HOH HOH . 
Q 8 HOH A 113 1013 5 HOH HOH . 
Q 8 HOH A 114 1014 30 HOH HOH . 
Q 8 HOH A 115 1015 124 HOH HOH . 
Q 8 HOH A 116 1016 69 HOH HOH . 
Q 8 HOH A 117 1017 15 HOH HOH . 
Q 8 HOH A 118 1018 9 HOH HOH . 
Q 8 HOH A 119 1019 46 HOH HOH . 
Q 8 HOH A 120 1020 12 HOH HOH . 
Q 8 HOH A 121 1021 43 HOH HOH . 
Q 8 HOH A 122 1022 65 HOH HOH . 
Q 8 HOH A 123 1023 74 HOH HOH . 
Q 8 HOH A 124 1024 31 HOH HOH . 
Q 8 HOH A 125 1025 19 HOH HOH . 
Q 8 HOH A 126 1026 80 HOH HOH . 
Q 8 HOH A 127 1027 104 HOH HOH . 
Q 8 HOH A 128 1028 10 HOH HOH . 
Q 8 HOH A 129 1029 28 HOH HOH . 
Q 8 HOH A 130 1030 145 HOH HOH . 
Q 8 HOH A 131 1031 32 HOH HOH . 
Q 8 HOH A 132 1032 27 HOH HOH . 
Q 8 HOH A 133 1033 1 HOH HOH . 
Q 8 HOH A 134 1034 41 HOH HOH . 
Q 8 HOH A 135 1035 2 HOH HOH . 
Q 8 HOH A 136 1036 99 HOH HOH . 
Q 8 HOH A 137 1037 72 HOH HOH . 
Q 8 HOH A 138 1038 131 HOH HOH . 
Q 8 HOH A 139 1039 244 HOH HOH . 
Q 8 HOH A 140 1040 39 HOH HOH . 
Q 8 HOH A 141 1041 1 HOH HOH . 
Q 8 HOH A 142 1042 104 HOH HOH . 
Q 8 HOH A 143 1043 130 HOH HOH . 
Q 8 HOH A 144 1044 14 HOH HOH . 
Q 8 HOH A 145 1045 6 HOH HOH . 
Q 8 HOH A 146 1046 94 HOH HOH . 
Q 8 HOH A 147 1047 18 HOH HOH . 
Q 8 HOH A 148 1048 22 HOH HOH . 
Q 8 HOH A 149 1049 73 HOH HOH . 
Q 8 HOH A 150 1050 117 HOH HOH . 
Q 8 HOH A 151 1051 96 HOH HOH . 
Q 8 HOH A 152 1052 187 HOH HOH . 
Q 8 HOH A 153 1053 64 HOH HOH . 
Q 8 HOH A 154 1054 57 HOH HOH . 
Q 8 HOH A 155 1055 29 HOH HOH . 
Q 8 HOH A 156 1056 16 HOH HOH . 
Q 8 HOH A 157 1057 66 HOH HOH . 
Q 8 HOH A 158 1058 53 HOH HOH . 
Q 8 HOH A 159 1059 10 HOH HOH . 
Q 8 HOH A 160 1060 44 HOH HOH . 
Q 8 HOH A 161 1061 273 HOH HOH . 
Q 8 HOH A 162 1062 137 HOH HOH . 
Q 8 HOH A 163 1063 67 HOH HOH . 
Q 8 HOH A 164 1064 34 HOH HOH . 
Q 8 HOH A 165 1065 84 HOH HOH . 
Q 8 HOH A 166 1066 53 HOH HOH . 
Q 8 HOH A 167 1067 113 HOH HOH . 
Q 8 HOH A 168 1068 51 HOH HOH . 
Q 8 HOH A 169 1069 82 HOH HOH . 
Q 8 HOH A 170 1070 23 HOH HOH . 
Q 8 HOH A 171 1071 83 HOH HOH . 
Q 8 HOH A 172 1072 263 HOH HOH . 
Q 8 HOH A 173 1073 22 HOH HOH . 
Q 8 HOH A 174 1074 38 HOH HOH . 
Q 8 HOH A 175 1075 13 HOH HOH . 
Q 8 HOH A 176 1076 257 HOH HOH . 
Q 8 HOH A 177 1077 148 HOH HOH . 
Q 8 HOH A 178 1078 202 HOH HOH . 
Q 8 HOH A 179 1079 265 HOH HOH . 
Q 8 HOH A 180 1080 58 HOH HOH . 
Q 8 HOH A 181 1081 39 HOH HOH . 
Q 8 HOH A 182 1082 71 HOH HOH . 
Q 8 HOH A 183 1083 33 HOH HOH . 
Q 8 HOH A 184 1084 34 HOH HOH . 
Q 8 HOH A 185 1085 198 HOH HOH . 
Q 8 HOH A 186 1086 181 HOH HOH . 
Q 8 HOH A 187 1087 54 HOH HOH . 
Q 8 HOH A 188 1088 10 HOH HOH . 
Q 8 HOH A 189 1089 55 HOH HOH . 
Q 8 HOH A 190 1090 20 HOH HOH . 
Q 8 HOH A 191 1091 9 HOH HOH . 
Q 8 HOH A 192 1092 271 HOH HOH . 
Q 8 HOH A 193 1093 38 HOH HOH . 
Q 8 HOH A 194 1094 268 HOH HOH . 
Q 8 HOH A 195 1095 62 HOH HOH . 
Q 8 HOH A 196 1096 189 HOH HOH . 
Q 8 HOH A 197 1097 22 HOH HOH . 
Q 8 HOH A 198 1098 48 HOH HOH . 
Q 8 HOH A 199 1099 267 HOH HOH . 
Q 8 HOH A 200 1100 264 HOH HOH . 
Q 8 HOH A 201 1101 24 HOH HOH . 
Q 8 HOH A 202 1102 96 HOH HOH . 
Q 8 HOH A 203 1103 59 HOH HOH . 
Q 8 HOH A 204 1104 49 HOH HOH . 
Q 8 HOH A 205 1105 187 HOH HOH . 
Q 8 HOH A 206 1106 270 HOH HOH . 
Q 8 HOH A 207 1107 87 HOH HOH . 
Q 8 HOH A 208 1108 159 HOH HOH . 
Q 8 HOH A 209 1109 61 HOH HOH . 
Q 8 HOH A 210 1110 119 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           NI 
_atom_site.label_atom_id         NI 
_atom_site.label_comp_id         NI 
_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       4 
_atom_site.Cartn_x               82.071 
_atom_site.Cartn_y               67.147 
_atom_site.Cartn_z               11.428 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        29.37 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NI 
_atom_site.auth_comp_id          NI 
_atom_site.auth_seq_id           803 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           1 
#