data_1P8Z # _model_server_result.job_id V4DXMMmFr1HL8koxjJC14Q _model_server_result.datetime_utc '2024-11-21 17:38:02' _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 1p8z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1002}' # _entry.id 1P8Z # _exptl.entry_id 1P8Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 112.411 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CADMIUM ION' _entity.pdbx_number_of_molecules 3 _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 1P8Z _cell.length_a 114.22 _cell.length_b 114.22 _cell.length_c 93.77 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1P8Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 151 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 1 2' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA tetrameric 4 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,C,D,E,F,G,H,I 1 1 A,B,C,D,E,F,G,H,I 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_664 -y+1,-x+1,-z-1/3 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 57.11 98.917422 -31.256667 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 E N N ? 3 F 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 metalc ? metalc1 A O GLY 41 G GLY 65 1_555 D CA CA . G CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? metalc ? metalc2 A OD2 ASP 42 G ASP 66 1_555 D CA CA . G CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? metalc ? metalc3 A OE1 GLU 73 G GLU 97 1_555 D CA CA . G CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.827 ? metalc ? metalc4 A OE2 GLU 73 G GLU 97 1_555 D CA CA . G CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? metalc ? metalc5 A OD2 ASP 85 G ASP 109 1_555 C CD CD . G CD 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? metalc ? metalc6 A OD1 ASP 85 G ASP 109 1_555 C CD CD . G CD 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.943 ? metalc ? metalc7 A O GLY 90 G GLY 114 1_555 C CD CD . G CD 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc8 A O ALA 92 G ALA 116 1_555 C CD CD . G CD 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc9 A O VAL 121 G VAL 145 1_555 D CA CA . G CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc10 C CD CD . G CD 1002 1_555 B OE1 GLU 169 A GLU 167 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc11 B OD1 ASP 224 A ASP 222 1_555 F CD CD . A CD 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.642 ? metalc ? metalc12 B OD2 ASP 224 A ASP 222 1_555 F CD CD . A CD 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.73 ? metalc ? metalc13 B OE1 GLU 278 A GLU 276 6_555 F CD CD . A CD 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.637 ? metalc ? metalc14 G O3G ATP . A ATP 380 1_555 E CD CD . A CD 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? metalc ? metalc15 G O2B ATP . A ATP 380 1_555 E CD CD . A CD 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? # _chem_comp.formula 'Cd 2' _chem_comp.formula_weight 112.411 _chem_comp.id CD _chem_comp.mon_nstd_flag . _chem_comp.name 'CADMIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1P8Z _atom_sites.fract_transf_matrix[1][1] 0.008755 _atom_sites.fract_transf_matrix[1][2] 0.005055 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010109 _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] 0.010664 _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 C 3 CD G 1 1002 1002 CD CD . D 4 CA G 1 1003 1003 CA CA . E 3 CD A 1 1001 1001 CD CD . F 3 CD A 1 1004 1004 CD CD . G 5 ATP A 1 380 380 ATP ATP . H 6 HOH G 1 1004 16 HOH HOH . H 6 HOH G 2 1005 151 HOH HOH . H 6 HOH G 3 1006 155 HOH HOH . H 6 HOH G 4 1007 157 HOH HOH . H 6 HOH G 5 1008 158 HOH HOH . H 6 HOH G 6 1009 159 HOH HOH . H 6 HOH G 7 1010 173 HOH HOH . H 6 HOH G 8 1011 292 HOH HOH . H 6 HOH G 9 1012 296 HOH HOH . H 6 HOH G 10 1013 299 HOH HOH . H 6 HOH G 11 1014 300 HOH HOH . H 6 HOH G 12 1015 301 HOH HOH . H 6 HOH G 13 1016 303 HOH HOH . H 6 HOH G 14 1017 304 HOH HOH . H 6 HOH G 15 1018 308 HOH HOH . H 6 HOH G 16 1019 309 HOH HOH . H 6 HOH G 17 1020 313 HOH HOH . H 6 HOH G 18 1021 314 HOH HOH . H 6 HOH G 19 1022 320 HOH HOH . H 6 HOH G 20 1023 321 HOH HOH . H 6 HOH G 21 1024 325 HOH HOH . H 6 HOH G 22 1025 327 HOH HOH . H 6 HOH G 23 1026 328 HOH HOH . H 6 HOH G 24 1027 331 HOH HOH . H 6 HOH G 25 1028 334 HOH HOH . H 6 HOH G 26 1029 335 HOH HOH . H 6 HOH G 27 1030 339 HOH HOH . H 6 HOH G 28 1031 342 HOH HOH . H 6 HOH G 29 1032 346 HOH HOH . H 6 HOH G 30 1033 353 HOH HOH . H 6 HOH G 31 1034 357 HOH HOH . H 6 HOH G 32 1035 360 HOH HOH . H 6 HOH G 33 1036 365 HOH HOH . H 6 HOH G 34 1037 373 HOH HOH . H 6 HOH G 35 1038 379 HOH HOH . H 6 HOH G 36 1039 481 HOH HOH . H 6 HOH G 37 1040 507 HOH HOH . H 6 HOH G 38 1041 511 HOH HOH . H 6 HOH G 39 1042 513 HOH HOH . H 6 HOH G 40 1043 514 HOH HOH . H 6 HOH G 41 1044 518 HOH HOH . H 6 HOH G 42 1045 520 HOH HOH . H 6 HOH G 43 1046 525 HOH HOH . H 6 HOH G 44 1047 529 HOH HOH . H 6 HOH G 45 1048 540 HOH HOH . H 6 HOH G 46 1049 555 HOH HOH . H 6 HOH G 47 1050 556 HOH HOH . H 6 HOH G 48 1051 557 HOH HOH . I 6 HOH A 1 1005 1 HOH HOH . I 6 HOH A 2 1006 4 HOH HOH . I 6 HOH A 3 1007 5 HOH HOH . I 6 HOH A 4 1008 6 HOH HOH . I 6 HOH A 5 1009 7 HOH HOH . I 6 HOH A 6 1010 9 HOH HOH . I 6 HOH A 7 1011 10 HOH HOH . I 6 HOH A 8 1012 11 HOH HOH . I 6 HOH A 9 1013 12 HOH HOH . I 6 HOH A 10 1014 13 HOH HOH . I 6 HOH A 11 1015 14 HOH HOH . I 6 HOH A 12 1016 21 HOH HOH . I 6 HOH A 13 1017 25 HOH HOH . I 6 HOH A 14 1018 30 HOH HOH . I 6 HOH A 15 1019 33 HOH HOH . I 6 HOH A 16 1020 34 HOH HOH . I 6 HOH A 17 1021 39 HOH HOH . I 6 HOH A 18 1022 41 HOH HOH . I 6 HOH A 19 1023 42 HOH HOH . I 6 HOH A 20 1024 43 HOH HOH . I 6 HOH A 21 1025 44 HOH HOH . I 6 HOH A 22 1026 45 HOH HOH . I 6 HOH A 23 1027 46 HOH HOH . I 6 HOH A 24 1028 47 HOH HOH . I 6 HOH A 25 1029 49 HOH HOH . I 6 HOH A 26 1030 50 HOH HOH . I 6 HOH A 27 1031 51 HOH HOH . I 6 HOH A 28 1032 52 HOH HOH . I 6 HOH A 29 1033 54 HOH HOH . I 6 HOH A 30 1034 56 HOH HOH . I 6 HOH A 31 1035 60 HOH HOH . I 6 HOH A 32 1036 62 HOH HOH . I 6 HOH A 33 1037 68 HOH HOH . I 6 HOH A 34 1038 73 HOH HOH . I 6 HOH A 35 1039 75 HOH HOH . I 6 HOH A 36 1040 76 HOH HOH . I 6 HOH A 37 1041 82 HOH HOH . I 6 HOH A 38 1042 83 HOH HOH . I 6 HOH A 39 1043 84 HOH HOH . I 6 HOH A 40 1044 97 HOH HOH . I 6 HOH A 41 1045 99 HOH HOH . I 6 HOH A 42 1046 100 HOH HOH . I 6 HOH A 43 1047 101 HOH HOH . I 6 HOH A 44 1048 104 HOH HOH . I 6 HOH A 45 1049 114 HOH HOH . I 6 HOH A 46 1050 116 HOH HOH . I 6 HOH A 47 1051 117 HOH HOH . I 6 HOH A 48 1052 118 HOH HOH . I 6 HOH A 49 1053 122 HOH HOH . I 6 HOH A 50 1054 124 HOH HOH . I 6 HOH A 51 1055 131 HOH HOH . I 6 HOH A 52 1056 135 HOH HOH . I 6 HOH A 53 1057 136 HOH HOH . I 6 HOH A 54 1058 138 HOH HOH . I 6 HOH A 55 1059 142 HOH HOH . I 6 HOH A 56 1060 143 HOH HOH . I 6 HOH A 57 1061 144 HOH HOH . I 6 HOH A 58 1062 145 HOH HOH . I 6 HOH A 59 1063 146 HOH HOH . I 6 HOH A 60 1064 147 HOH HOH . I 6 HOH A 61 1065 148 HOH HOH . I 6 HOH A 62 1066 149 HOH HOH . I 6 HOH A 63 1067 156 HOH HOH . I 6 HOH A 64 1068 160 HOH HOH . I 6 HOH A 65 1069 161 HOH HOH . I 6 HOH A 66 1070 162 HOH HOH . I 6 HOH A 67 1071 165 HOH HOH . I 6 HOH A 68 1072 166 HOH HOH . I 6 HOH A 69 1073 167 HOH HOH . I 6 HOH A 70 1074 168 HOH HOH . I 6 HOH A 71 1075 169 HOH HOH . I 6 HOH A 72 1076 170 HOH HOH . I 6 HOH A 73 1077 177 HOH HOH . I 6 HOH A 74 1078 181 HOH HOH . I 6 HOH A 75 1079 183 HOH HOH . I 6 HOH A 76 1080 186 HOH HOH . I 6 HOH A 77 1081 190 HOH HOH . I 6 HOH A 78 1082 194 HOH HOH . I 6 HOH A 79 1083 195 HOH HOH . I 6 HOH A 80 1084 198 HOH HOH . I 6 HOH A 81 1085 201 HOH HOH . I 6 HOH A 82 1086 202 HOH HOH . I 6 HOH A 83 1087 203 HOH HOH . I 6 HOH A 84 1088 207 HOH HOH . I 6 HOH A 85 1089 208 HOH HOH . I 6 HOH A 86 1090 210 HOH HOH . I 6 HOH A 87 1091 212 HOH HOH . I 6 HOH A 88 1092 214 HOH HOH . I 6 HOH A 89 1093 215 HOH HOH . I 6 HOH A 90 1094 217 HOH HOH . I 6 HOH A 91 1095 224 HOH HOH . I 6 HOH A 92 1096 236 HOH HOH . I 6 HOH A 93 1097 246 HOH HOH . I 6 HOH A 94 1098 248 HOH HOH . I 6 HOH A 95 1099 249 HOH HOH . I 6 HOH A 96 1100 250 HOH HOH . I 6 HOH A 97 1101 257 HOH HOH . I 6 HOH A 98 1102 264 HOH HOH . I 6 HOH A 99 1103 266 HOH HOH . I 6 HOH A 100 1104 273 HOH HOH . I 6 HOH A 101 1105 277 HOH HOH . I 6 HOH A 102 1106 282 HOH HOH . I 6 HOH A 103 1107 350 HOH HOH . I 6 HOH A 104 1108 376 HOH HOH . I 6 HOH A 105 1109 377 HOH HOH . I 6 HOH A 106 1110 383 HOH HOH . I 6 HOH A 107 1111 395 HOH HOH . I 6 HOH A 108 1112 397 HOH HOH . I 6 HOH A 109 1113 398 HOH HOH . I 6 HOH A 110 1114 400 HOH HOH . I 6 HOH A 111 1115 408 HOH HOH . I 6 HOH A 112 1116 410 HOH HOH . I 6 HOH A 113 1117 418 HOH HOH . I 6 HOH A 114 1118 422 HOH HOH . I 6 HOH A 115 1119 425 HOH HOH . I 6 HOH A 116 1120 426 HOH HOH . I 6 HOH A 117 1121 429 HOH HOH . I 6 HOH A 118 1122 438 HOH HOH . I 6 HOH A 119 1123 439 HOH HOH . I 6 HOH A 120 1124 441 HOH HOH . I 6 HOH A 121 1125 444 HOH HOH . I 6 HOH A 122 1126 456 HOH HOH . I 6 HOH A 123 1127 459 HOH HOH . I 6 HOH A 124 1128 463 HOH HOH . I 6 HOH A 125 1129 469 HOH HOH . I 6 HOH A 126 1130 478 HOH HOH . I 6 HOH A 127 1131 479 HOH HOH . I 6 HOH A 128 1132 482 HOH HOH . I 6 HOH A 129 1133 487 HOH HOH . I 6 HOH A 130 1134 492 HOH HOH . I 6 HOH A 131 1135 493 HOH HOH . I 6 HOH A 132 1136 496 HOH HOH . I 6 HOH A 133 1137 500 HOH HOH . I 6 HOH A 134 1138 502 HOH HOH . I 6 HOH A 135 1139 505 HOH HOH . I 6 HOH A 136 1140 547 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CD _atom_site.label_atom_id CD _atom_site.label_comp_id CD _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 34.249 _atom_site.Cartn_y 55.623 _atom_site.Cartn_z -11.23 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 26.35 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CD _atom_site.auth_comp_id CD _atom_site.auth_seq_id 1002 _atom_site.auth_asym_id G _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #