data_1XMK # _model_server_result.job_id Ac1E-GiXunl3T0zEfd17Ww _model_server_result.datetime_utc '2024-11-05 22:56:36' _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 1xmk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":398}' # _entry.id 1XMK # _exptl.entry_id 1XMK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 3 _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 90 _cell.entry_id 1XMK _cell.length_a 35.557 _cell.length_b 43.526 _cell.length_c 45.471 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XMK _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 ? _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 _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 N GLY 1 A GLY 288 1_555 D NI NI . A NI 398 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.893 ? metalc ? metalc2 A N SER 2 A SER 289 1_555 D NI NI . A NI 398 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.795 ? metalc ? metalc3 A N HIS 3 A HIS 290 1_555 D NI NI . A NI 398 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.843 ? metalc ? metalc4 A ND1 HIS 3 A HIS 290 1_555 D NI NI . A NI 398 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? metalc ? metalc5 A OE2 GLU 14 A GLU 301 1_555 C CD CD . A CD 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.542 ? metalc ? metalc6 A OE1 GLU 14 A GLU 301 1_555 C CD CD . A CD 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc7 A SG CYS 17 A CYS 304 1_555 B CD CD . A CD 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.508 ? metalc ? metalc8 A SG CYS 17 A CYS 304 1_555 C CD CD . A CD 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? metalc ? metalc9 A OD1 ASP 25 A ASP 312 4_557 B CD CD . A CD 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc10 A OD2 ASP 25 A ASP 312 4_557 B CD CD . A CD 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? metalc ? metalc11 A OD1 ASP 25 A ASP 312 4_557 C CD CD . A CD 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.614 ? metalc ? metalc12 A NE2 HIS 67 A HIS 354 4_557 C CD CD . A CD 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc13 A NZ LYS 72 A LYS 359 1_555 B CD CD . A CD 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc14 B CD CD . A CD 396 1_555 E CL CL . A CL 399 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? metalc ? metalc15 C CD CD . A CD 397 1_555 F CL CL . A CL 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? # _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 1XMK _atom_sites.fract_transf_matrix[1][1] 0.028124 _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] 0.022975 _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] 0.021992 _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 CD A 1 396 396 CD CD . C 2 CD A 1 397 397 CD CD . D 3 NI A 1 398 398 NI NI . E 4 CL A 1 399 399 CL CL . F 4 CL A 1 400 400 CL CL . G 5 HOH A 1 1001 1001 HOH HOH . G 5 HOH A 2 1002 1002 HOH HOH . G 5 HOH A 3 1003 1003 HOH HOH . G 5 HOH A 4 1004 1004 HOH HOH . G 5 HOH A 5 1005 1005 HOH HOH . G 5 HOH A 6 1006 1006 HOH HOH . G 5 HOH A 7 1007 1007 HOH HOH . G 5 HOH A 8 1008 1008 HOH HOH . G 5 HOH A 9 1009 1009 HOH HOH . G 5 HOH A 10 1010 1010 HOH HOH . G 5 HOH A 11 1011 1011 HOH HOH . G 5 HOH A 12 1012 1012 HOH HOH . G 5 HOH A 13 1013 1013 HOH HOH . G 5 HOH A 14 1014 1014 HOH HOH . G 5 HOH A 15 1015 1015 HOH HOH . G 5 HOH A 16 1016 1016 HOH HOH . G 5 HOH A 17 1017 1017 HOH HOH . G 5 HOH A 18 1018 1018 HOH HOH . G 5 HOH A 19 1019 1019 HOH HOH . G 5 HOH A 20 1020 1020 HOH HOH . G 5 HOH A 21 1021 1021 HOH HOH . G 5 HOH A 22 1022 1022 HOH HOH . G 5 HOH A 23 1023 1023 HOH HOH . G 5 HOH A 24 1024 1024 HOH HOH . G 5 HOH A 25 1025 1025 HOH HOH . G 5 HOH A 26 1026 1026 HOH HOH . G 5 HOH A 27 1027 1027 HOH HOH . G 5 HOH A 28 1028 1028 HOH HOH . G 5 HOH A 29 1029 1029 HOH HOH . G 5 HOH A 30 1030 1030 HOH HOH . G 5 HOH A 31 1031 1031 HOH HOH . G 5 HOH A 32 1032 1032 HOH HOH . G 5 HOH A 33 1033 1033 HOH HOH . G 5 HOH A 34 1034 1034 HOH HOH . G 5 HOH A 35 1035 1035 HOH HOH . G 5 HOH A 36 1036 1036 HOH HOH . G 5 HOH A 37 1037 1037 HOH HOH . G 5 HOH A 38 1038 1038 HOH HOH . G 5 HOH A 39 1039 1039 HOH HOH . G 5 HOH A 40 1040 1040 HOH HOH . G 5 HOH A 41 1041 1041 HOH HOH . G 5 HOH A 42 1042 1042 HOH HOH . G 5 HOH A 43 1043 1043 HOH HOH . G 5 HOH A 44 1044 1044 HOH HOH . G 5 HOH A 45 1045 1045 HOH HOH . G 5 HOH A 46 1046 1046 HOH HOH . G 5 HOH A 47 1047 1047 HOH HOH . G 5 HOH A 48 1048 1048 HOH HOH . G 5 HOH A 49 1049 1049 HOH HOH . G 5 HOH A 50 1050 1050 HOH HOH . G 5 HOH A 51 1051 1051 HOH HOH . G 5 HOH A 52 1052 1052 HOH HOH . G 5 HOH A 53 1053 1053 HOH HOH . G 5 HOH A 54 1054 1054 HOH HOH . G 5 HOH A 55 1055 1055 HOH HOH . G 5 HOH A 56 1056 1056 HOH HOH . G 5 HOH A 57 1057 1057 HOH HOH . G 5 HOH A 58 1058 1058 HOH HOH . G 5 HOH A 59 1059 1059 HOH HOH . G 5 HOH A 60 1060 1060 HOH HOH . G 5 HOH A 61 1061 1061 HOH HOH . G 5 HOH A 62 1062 1062 HOH HOH . G 5 HOH A 63 1063 1063 HOH HOH . G 5 HOH A 64 1064 1064 HOH HOH . G 5 HOH A 65 1065 1065 HOH HOH . G 5 HOH A 66 1066 1066 HOH HOH . G 5 HOH A 67 1067 1067 HOH HOH . G 5 HOH A 68 1068 1068 HOH HOH . G 5 HOH A 69 1069 1069 HOH HOH . G 5 HOH A 70 1070 1070 HOH HOH . G 5 HOH A 71 1071 1071 HOH HOH . G 5 HOH A 72 1072 1072 HOH HOH . G 5 HOH A 73 1073 1073 HOH HOH . G 5 HOH A 74 1074 1074 HOH HOH . G 5 HOH A 75 1075 1075 HOH HOH . G 5 HOH A 76 1076 1076 HOH HOH . G 5 HOH A 77 1077 1077 HOH HOH . G 5 HOH A 78 1078 1078 HOH HOH . G 5 HOH A 79 1079 1079 HOH HOH . G 5 HOH A 80 1080 1080 HOH HOH . G 5 HOH A 81 1081 1081 HOH HOH . G 5 HOH A 82 1082 1082 HOH HOH . G 5 HOH A 83 1083 1083 HOH HOH . G 5 HOH A 84 1084 1084 HOH HOH . G 5 HOH A 85 1085 1085 HOH HOH . G 5 HOH A 86 1086 1086 HOH HOH . G 5 HOH A 87 1087 1087 HOH HOH . G 5 HOH A 88 1088 1088 HOH HOH . G 5 HOH A 89 1089 1089 HOH HOH . G 5 HOH A 90 1090 1090 HOH HOH . G 5 HOH A 91 1091 1091 HOH HOH . G 5 HOH A 92 1092 1092 HOH HOH . G 5 HOH A 93 1093 1093 HOH HOH . G 5 HOH A 94 1094 1094 HOH HOH . G 5 HOH A 95 1095 1095 HOH HOH . G 5 HOH A 96 1096 1096 HOH HOH . G 5 HOH A 97 1097 1097 HOH HOH . G 5 HOH A 98 1098 1098 HOH HOH . G 5 HOH A 99 1099 1099 HOH HOH . G 5 HOH A 100 1100 1100 HOH HOH . G 5 HOH A 101 1101 1101 HOH HOH . G 5 HOH A 102 1102 1102 HOH HOH . G 5 HOH A 103 1103 1103 HOH HOH . G 5 HOH A 104 1104 1104 HOH HOH . G 5 HOH A 105 1105 1105 HOH HOH . G 5 HOH A 106 1106 1106 HOH HOH . G 5 HOH A 107 1107 1107 HOH HOH . G 5 HOH A 108 1108 1108 HOH HOH . G 5 HOH A 109 1109 1109 HOH HOH . G 5 HOH A 110 1110 1110 HOH HOH . G 5 HOH A 111 1111 1111 HOH HOH . G 5 HOH A 112 1112 1112 HOH HOH . G 5 HOH A 113 1113 1113 HOH HOH . G 5 HOH A 114 1114 1114 HOH HOH . G 5 HOH A 115 1115 1115 HOH HOH . G 5 HOH A 116 1116 1116 HOH HOH . G 5 HOH A 117 1117 1117 HOH HOH . G 5 HOH A 118 1118 1118 HOH HOH . G 5 HOH A 119 1119 1119 HOH HOH . G 5 HOH A 120 1120 1120 HOH HOH . G 5 HOH A 121 1121 1121 HOH HOH . G 5 HOH A 122 1122 1122 HOH HOH . G 5 HOH A 123 1123 1123 HOH HOH . G 5 HOH A 124 1124 1124 HOH HOH . G 5 HOH A 125 1125 1125 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 3 _atom_site.Cartn_x 13.849 _atom_site.Cartn_y 21.95 _atom_site.Cartn_z 30.99 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 21.68 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 398 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 454 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #