data_4QX7 # _model_server_result.job_id IQmela0I9pYzHJT9JKDW0g _model_server_result.datetime_utc '2024-12-18 04:51:23' _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 4qx7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":702}' # _entry.id 4QX7 # _exptl.entry_id 4QX7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NICKEL (II) ION' _entity.pdbx_number_of_molecules 2 _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 4QX7 _cell.length_a 54.343 _cell.length_b 86.487 _cell.length_c 170.944 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4QX7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,G,H,K,L,O 1 1 C,D,F,I,J,M,N,P 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 H N N ? 5 J N 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 E C VAL 7 E VAL 35 1_555 E N MLY 8 E MLY 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale2 E C MLY 8 E MLY 36 1_555 E N LYS 9 E LYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale3 F C VAL 7 F VAL 35 1_555 F N MLY 8 F MLY 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale4 F C MLY 8 F MLY 36 1_555 F N LYS 9 F LYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? metalc ? metalc1 G O5 AKG . A AKG 701 1_555 H NI NI . A NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc2 I O5 AKG . C AKG 701 1_555 J NI NI . C NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? metalc ? metalc3 A NE2 HIS 177 A HIS 212 1_555 H NI NI . A NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? metalc ? metalc4 C NE2 HIS 177 C HIS 212 1_555 J NI NI . C NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc5 I O1 AKG . C AKG 701 1_555 J NI NI . C NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc6 C NE2 HIS 249 C HIS 284 1_555 J NI NI . C NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc7 G O1 AKG . A AKG 701 1_555 H NI NI . A NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc8 A NE2 HIS 249 A HIS 284 1_555 H NI NI . A NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc9 A OD1 ASP 179 A ASP 214 1_555 H NI NI . A NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc10 C OD1 ASP 179 C ASP 214 1_555 J NI NI . C NI 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? # _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 4QX7 _atom_sites.fract_transf_matrix[1][1] 0.018402 _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] 0.011562 _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] 0.00585 _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 G 4 AKG A 1 701 701 AKG AKG . H 5 NI A 1 702 601 NI NI . I 4 AKG C 1 701 701 AKG AKG . J 5 NI C 1 702 601 NI NI . K 6 HOH A 1 801 1 HOH HOH . K 6 HOH A 2 802 2 HOH HOH . K 6 HOH A 3 803 3 HOH HOH . K 6 HOH A 4 804 4 HOH HOH . K 6 HOH A 5 805 5 HOH HOH . K 6 HOH A 6 806 6 HOH HOH . K 6 HOH A 7 807 7 HOH HOH . K 6 HOH A 8 808 8 HOH HOH . K 6 HOH A 9 809 9 HOH HOH . K 6 HOH A 10 810 10 HOH HOH . K 6 HOH A 11 811 11 HOH HOH . K 6 HOH A 12 812 12 HOH HOH . K 6 HOH A 13 813 13 HOH HOH . K 6 HOH A 14 814 14 HOH HOH . K 6 HOH A 15 815 15 HOH HOH . K 6 HOH A 16 816 16 HOH HOH . K 6 HOH A 17 817 17 HOH HOH . K 6 HOH A 18 818 18 HOH HOH . K 6 HOH A 19 819 19 HOH HOH . K 6 HOH A 20 820 20 HOH HOH . K 6 HOH A 21 821 21 HOH HOH . K 6 HOH A 22 822 22 HOH HOH . K 6 HOH A 23 823 23 HOH HOH . K 6 HOH A 24 824 24 HOH HOH . K 6 HOH A 25 825 25 HOH HOH . K 6 HOH A 26 826 26 HOH HOH . K 6 HOH A 27 827 27 HOH HOH . K 6 HOH A 28 828 28 HOH HOH . K 6 HOH A 29 829 29 HOH HOH . K 6 HOH A 30 830 62 HOH HOH . K 6 HOH A 31 831 63 HOH HOH . K 6 HOH A 32 832 64 HOH HOH . K 6 HOH A 33 833 70 HOH HOH . K 6 HOH A 34 834 77 HOH HOH . K 6 HOH A 35 835 79 HOH HOH . K 6 HOH A 36 836 82 HOH HOH . K 6 HOH A 37 837 84 HOH HOH . K 6 HOH A 38 838 85 HOH HOH . K 6 HOH A 39 839 88 HOH HOH . K 6 HOH A 40 840 91 HOH HOH . K 6 HOH A 41 841 92 HOH HOH . K 6 HOH A 42 842 93 HOH HOH . K 6 HOH A 43 843 96 HOH HOH . K 6 HOH A 44 844 100 HOH HOH . K 6 HOH A 45 845 101 HOH HOH . K 6 HOH A 46 846 102 HOH HOH . K 6 HOH A 47 847 105 HOH HOH . K 6 HOH A 48 848 106 HOH HOH . K 6 HOH A 49 849 107 HOH HOH . K 6 HOH A 50 850 108 HOH HOH . K 6 HOH A 51 851 109 HOH HOH . K 6 HOH A 52 852 110 HOH HOH . K 6 HOH A 53 853 111 HOH HOH . K 6 HOH A 54 854 112 HOH HOH . K 6 HOH A 55 855 113 HOH HOH . K 6 HOH A 56 856 114 HOH HOH . K 6 HOH A 57 857 115 HOH HOH . K 6 HOH A 58 858 116 HOH HOH . K 6 HOH A 59 859 117 HOH HOH . K 6 HOH A 60 860 118 HOH HOH . K 6 HOH A 61 861 119 HOH HOH . K 6 HOH A 62 862 120 HOH HOH . K 6 HOH A 63 863 121 HOH HOH . K 6 HOH A 64 864 123 HOH HOH . K 6 HOH A 65 865 124 HOH HOH . K 6 HOH A 66 866 125 HOH HOH . K 6 HOH A 67 867 126 HOH HOH . K 6 HOH A 68 868 127 HOH HOH . K 6 HOH A 69 869 129 HOH HOH . K 6 HOH A 70 870 130 HOH HOH . K 6 HOH A 71 871 131 HOH HOH . K 6 HOH A 72 872 133 HOH HOH . K 6 HOH A 73 873 134 HOH HOH . K 6 HOH A 74 874 135 HOH HOH . K 6 HOH A 75 875 136 HOH HOH . K 6 HOH A 76 876 137 HOH HOH . K 6 HOH A 77 877 138 HOH HOH . K 6 HOH A 78 878 140 HOH HOH . K 6 HOH A 79 879 141 HOH HOH . K 6 HOH A 80 880 142 HOH HOH . K 6 HOH A 81 881 143 HOH HOH . K 6 HOH A 82 882 144 HOH HOH . K 6 HOH A 83 883 147 HOH HOH . K 6 HOH A 84 884 148 HOH HOH . K 6 HOH A 85 885 149 HOH HOH . K 6 HOH A 86 886 150 HOH HOH . K 6 HOH A 87 887 151 HOH HOH . K 6 HOH A 88 888 152 HOH HOH . K 6 HOH A 89 889 153 HOH HOH . K 6 HOH A 90 890 154 HOH HOH . K 6 HOH A 91 891 155 HOH HOH . K 6 HOH A 92 892 156 HOH HOH . K 6 HOH A 93 893 157 HOH HOH . K 6 HOH A 94 894 158 HOH HOH . K 6 HOH A 95 895 159 HOH HOH . K 6 HOH A 96 896 160 HOH HOH . K 6 HOH A 97 897 161 HOH HOH . K 6 HOH A 98 898 162 HOH HOH . K 6 HOH A 99 899 167 HOH HOH . K 6 HOH A 100 900 219 HOH HOH . K 6 HOH A 101 901 221 HOH HOH . K 6 HOH A 102 902 228 HOH HOH . K 6 HOH A 103 903 231 HOH HOH . K 6 HOH A 104 904 237 HOH HOH . K 6 HOH A 105 905 238 HOH HOH . K 6 HOH A 106 906 242 HOH HOH . K 6 HOH A 107 907 245 HOH HOH . K 6 HOH A 108 908 246 HOH HOH . K 6 HOH A 109 909 248 HOH HOH . K 6 HOH A 110 910 250 HOH HOH . K 6 HOH A 111 911 253 HOH HOH . K 6 HOH A 112 912 254 HOH HOH . K 6 HOH A 113 913 261 HOH HOH . K 6 HOH A 114 914 262 HOH HOH . K 6 HOH A 115 915 264 HOH HOH . K 6 HOH A 116 916 122 HOH HOH . K 6 HOH A 117 917 132 HOH HOH . L 6 HOH B 1 601 65 HOH HOH . L 6 HOH B 2 602 66 HOH HOH . L 6 HOH B 3 603 71 HOH HOH . L 6 HOH B 4 604 72 HOH HOH . L 6 HOH B 5 605 87 HOH HOH . L 6 HOH B 6 606 89 HOH HOH . L 6 HOH B 7 607 94 HOH HOH . L 6 HOH B 8 608 98 HOH HOH . L 6 HOH B 9 609 103 HOH HOH . L 6 HOH B 10 610 128 HOH HOH . L 6 HOH B 11 611 139 HOH HOH . L 6 HOH B 12 612 145 HOH HOH . L 6 HOH B 13 613 146 HOH HOH . L 6 HOH B 14 614 163 HOH HOH . L 6 HOH B 15 615 164 HOH HOH . L 6 HOH B 16 616 217 HOH HOH . L 6 HOH B 17 617 223 HOH HOH . L 6 HOH B 18 618 226 HOH HOH . L 6 HOH B 19 619 229 HOH HOH . L 6 HOH B 20 620 230 HOH HOH . L 6 HOH B 21 621 234 HOH HOH . L 6 HOH B 22 622 239 HOH HOH . L 6 HOH B 23 623 241 HOH HOH . L 6 HOH B 24 624 243 HOH HOH . L 6 HOH B 25 625 258 HOH HOH . M 6 HOH C 1 801 30 HOH HOH . M 6 HOH C 2 802 31 HOH HOH . M 6 HOH C 3 803 32 HOH HOH . M 6 HOH C 4 804 33 HOH HOH . M 6 HOH C 5 805 34 HOH HOH . M 6 HOH C 6 806 35 HOH HOH . M 6 HOH C 7 807 36 HOH HOH . M 6 HOH C 8 808 37 HOH HOH . M 6 HOH C 9 809 38 HOH HOH . M 6 HOH C 10 810 39 HOH HOH . M 6 HOH C 11 811 40 HOH HOH . M 6 HOH C 12 812 41 HOH HOH . M 6 HOH C 13 813 42 HOH HOH . M 6 HOH C 14 814 43 HOH HOH . M 6 HOH C 15 815 44 HOH HOH . M 6 HOH C 16 816 45 HOH HOH . M 6 HOH C 17 817 47 HOH HOH . M 6 HOH C 18 818 48 HOH HOH . M 6 HOH C 19 819 49 HOH HOH . M 6 HOH C 20 820 50 HOH HOH . M 6 HOH C 21 821 51 HOH HOH . M 6 HOH C 22 822 52 HOH HOH . M 6 HOH C 23 823 53 HOH HOH . M 6 HOH C 24 824 54 HOH HOH . M 6 HOH C 25 825 55 HOH HOH . M 6 HOH C 26 826 56 HOH HOH . M 6 HOH C 27 827 57 HOH HOH . M 6 HOH C 28 828 58 HOH HOH . M 6 HOH C 29 829 59 HOH HOH . M 6 HOH C 30 830 60 HOH HOH . M 6 HOH C 31 831 67 HOH HOH . M 6 HOH C 32 832 69 HOH HOH . M 6 HOH C 33 833 74 HOH HOH . M 6 HOH C 34 834 76 HOH HOH . M 6 HOH C 35 835 78 HOH HOH . M 6 HOH C 36 836 81 HOH HOH . M 6 HOH C 37 837 83 HOH HOH . M 6 HOH C 38 838 90 HOH HOH . M 6 HOH C 39 839 95 HOH HOH . M 6 HOH C 40 840 99 HOH HOH . M 6 HOH C 41 841 104 HOH HOH . M 6 HOH C 42 842 168 HOH HOH . M 6 HOH C 43 843 169 HOH HOH . M 6 HOH C 44 844 170 HOH HOH . M 6 HOH C 45 845 171 HOH HOH . M 6 HOH C 46 846 172 HOH HOH . M 6 HOH C 47 847 173 HOH HOH . M 6 HOH C 48 848 174 HOH HOH . M 6 HOH C 49 849 175 HOH HOH . M 6 HOH C 50 850 176 HOH HOH . M 6 HOH C 51 851 177 HOH HOH . M 6 HOH C 52 852 178 HOH HOH . M 6 HOH C 53 853 179 HOH HOH . M 6 HOH C 54 854 180 HOH HOH . M 6 HOH C 55 855 182 HOH HOH . M 6 HOH C 56 856 183 HOH HOH . M 6 HOH C 57 857 184 HOH HOH . M 6 HOH C 58 858 185 HOH HOH . M 6 HOH C 59 859 186 HOH HOH . M 6 HOH C 60 860 187 HOH HOH . M 6 HOH C 61 861 188 HOH HOH . M 6 HOH C 62 862 189 HOH HOH . M 6 HOH C 63 863 190 HOH HOH . M 6 HOH C 64 864 191 HOH HOH . M 6 HOH C 65 865 193 HOH HOH . M 6 HOH C 66 866 194 HOH HOH . M 6 HOH C 67 867 195 HOH HOH . M 6 HOH C 68 868 196 HOH HOH . M 6 HOH C 69 869 197 HOH HOH . M 6 HOH C 70 870 198 HOH HOH . M 6 HOH C 71 871 199 HOH HOH . M 6 HOH C 72 872 200 HOH HOH . M 6 HOH C 73 873 201 HOH HOH . M 6 HOH C 74 874 203 HOH HOH . M 6 HOH C 75 875 204 HOH HOH . M 6 HOH C 76 876 205 HOH HOH . M 6 HOH C 77 877 206 HOH HOH . M 6 HOH C 78 878 207 HOH HOH . M 6 HOH C 79 879 208 HOH HOH . M 6 HOH C 80 880 210 HOH HOH . M 6 HOH C 81 881 211 HOH HOH . M 6 HOH C 82 882 213 HOH HOH . M 6 HOH C 83 883 215 HOH HOH . M 6 HOH C 84 884 216 HOH HOH . M 6 HOH C 85 885 218 HOH HOH . M 6 HOH C 86 886 220 HOH HOH . M 6 HOH C 87 887 222 HOH HOH . M 6 HOH C 88 888 224 HOH HOH . M 6 HOH C 89 889 225 HOH HOH . M 6 HOH C 90 890 233 HOH HOH . M 6 HOH C 91 891 236 HOH HOH . M 6 HOH C 92 892 240 HOH HOH . M 6 HOH C 93 893 244 HOH HOH . M 6 HOH C 94 894 249 HOH HOH . M 6 HOH C 95 895 251 HOH HOH . M 6 HOH C 96 896 252 HOH HOH . M 6 HOH C 97 897 256 HOH HOH . M 6 HOH C 98 898 257 HOH HOH . M 6 HOH C 99 899 259 HOH HOH . M 6 HOH C 100 900 260 HOH HOH . M 6 HOH C 101 901 265 HOH HOH . M 6 HOH C 102 902 181 HOH HOH . N 6 HOH D 1 601 73 HOH HOH . N 6 HOH D 2 602 80 HOH HOH . N 6 HOH D 3 603 86 HOH HOH . N 6 HOH D 4 604 97 HOH HOH . N 6 HOH D 5 605 166 HOH HOH . N 6 HOH D 6 606 192 HOH HOH . N 6 HOH D 7 607 202 HOH HOH . N 6 HOH D 8 608 209 HOH HOH . N 6 HOH D 9 609 212 HOH HOH . N 6 HOH D 10 610 214 HOH HOH . N 6 HOH D 11 611 227 HOH HOH . N 6 HOH D 12 612 235 HOH HOH . N 6 HOH D 13 613 247 HOH HOH . O 6 HOH E 1 101 61 HOH HOH . O 6 HOH E 2 102 68 HOH HOH . O 6 HOH E 3 103 165 HOH HOH . O 6 HOH E 4 104 232 HOH HOH . O 6 HOH E 5 105 255 HOH HOH . P 6 HOH F 1 101 46 HOH HOH . P 6 HOH F 2 102 75 HOH HOH . P 6 HOH F 3 103 263 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 J _atom_site.label_entity_id 5 _atom_site.Cartn_x 7.987 _atom_site.Cartn_y -0.385 _atom_site.Cartn_z 52.129 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 40.77 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 702 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 33 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #