data_6Y68 # _model_server_result.job_id Jqa9a4zxwMlg-gU6p0ygdg _model_server_result.datetime_utc '2025-07-12 17:09:36' _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 6y68 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1207}' # _entry.id 6Y68 # _exptl.entry_id 6Y68 _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 4 _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 6Y68 _cell.length_a 90.348 _cell.length_b 90.348 _cell.length_c 506.38 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6Y68 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_765 -y+2,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 135.522 78.243663 0 3 'crystal symmetry operation' 3_675 -x+y+1,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 156.487326 0 # 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 D N N ? 3 E N N ? 3 F N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN BMA C1 O1 . O3 HO3 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG A 1418 NAG 2 n B NAG 2 B 2 NAG A 1419 NAG 2 n B BMA 3 B 3 BMA A 1420 BMA 2 n B MAN 4 B 4 MAN A 1421 MAN # 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 87 A CYS 738 1_555 A SG CYS 122 A CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 91 A CYS 742 1_555 A SG CYS 129 A CYS 780 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 A SG CYS 103 A CYS 754 1_555 A SG CYS 236 A CYS 887 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf4 A SG CYS 117 A CYS 768 1_555 A SG CYS 247 A CYS 898 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf5 A SG CYS 132 A CYS 783 1_555 A SG CYS 255 A CYS 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 158 A CYS 809 1_555 A SG CYS 167 A CYS 818 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf7 A SG CYS 175 A CYS 826 1_555 A SG CYS 184 A CYS 835 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf8 A SG CYS 215 A CYS 866 1_555 A SG CYS 219 A CYS 870 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf9 A SG CYS 321 A CYS 972 1_555 A SG CYS 351 A CYS 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf10 A SG CYS 344 A CYS 995 1_555 A SG CYS 396 A CYS 1047 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf11 A SG CYS 361 A CYS 1012 1_555 A SG CYS 366 A CYS 1017 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf12 A SG CYS 397 A CYS 1048 1_555 A SG CYS 402 A CYS 1053 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? covale ? covale1 A ND2 ASN 279 A ASN 930 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale3 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 B O3 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? metalc ? metalc1 A NE2 HIS 56 A HIS 707 1_555 C CD CD . A CD 1205 18_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc2 A O THR 163 A THR 814 1_555 D CD CD . A CD 1206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.583 ? metalc ? metalc3 A SD MET 185 A MET 836 1_555 E CD CD . A CD 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.914 ? metalc ? metalc4 A OG1 THR 188 A THR 839 1_555 E CD CD . A CD 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.621 ? metalc ? metalc5 A OD1 ASP 282 A ASP 933 1_555 C CD CD . A CD 1205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.601 ? metalc ? metalc6 A OD2 ASP 282 A ASP 933 1_555 C CD CD . A CD 1205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.633 ? metalc ? metalc7 A OD2 ASP 301 A ASP 952 1_555 E CD CD . A CD 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? metalc ? metalc8 C CD CD . A CD 1205 1_555 G O HOH . A HOH 1382 18_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? metalc ? metalc9 E CD CD . A CD 1207 1_555 G O HOH . A HOH 1371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc10 E CD CD . A CD 1207 1_555 G O HOH . A HOH 1375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? # _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 6Y68 _atom_sites.fract_transf_matrix[1][1] 0.011068 _atom_sites.fract_transf_matrix[1][2] 0.00639 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012781 _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] 0.001975 _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 A 1 1205 1 CD CD . D 3 CD A 1 1206 3 CD CD . E 3 CD A 1 1207 4 CD CD . F 3 CD A 1 1208 5 CD CD . G 4 HOH A 1 1301 145 HOH HOH . G 4 HOH A 2 1302 10 HOH HOH . G 4 HOH A 3 1303 112 HOH HOH . G 4 HOH A 4 1304 152 HOH HOH . G 4 HOH A 5 1305 34 HOH HOH . G 4 HOH A 6 1306 151 HOH HOH . G 4 HOH A 7 1307 39 HOH HOH . G 4 HOH A 8 1308 55 HOH HOH . G 4 HOH A 9 1309 149 HOH HOH . G 4 HOH A 10 1310 87 HOH HOH . G 4 HOH A 11 1311 150 HOH HOH . G 4 HOH A 12 1312 33 HOH HOH . G 4 HOH A 13 1313 77 HOH HOH . G 4 HOH A 14 1314 18 HOH HOH . G 4 HOH A 15 1315 38 HOH HOH . G 4 HOH A 16 1316 53 HOH HOH . G 4 HOH A 17 1317 48 HOH HOH . G 4 HOH A 18 1318 3 HOH HOH . G 4 HOH A 19 1319 6 HOH HOH . G 4 HOH A 20 1320 36 HOH HOH . G 4 HOH A 21 1321 74 HOH HOH . G 4 HOH A 22 1322 27 HOH HOH . G 4 HOH A 23 1323 155 HOH HOH . G 4 HOH A 24 1324 13 HOH HOH . G 4 HOH A 25 1325 16 HOH HOH . G 4 HOH A 26 1326 79 HOH HOH . G 4 HOH A 27 1327 117 HOH HOH . G 4 HOH A 28 1328 148 HOH HOH . G 4 HOH A 29 1329 19 HOH HOH . G 4 HOH A 30 1330 106 HOH HOH . G 4 HOH A 31 1331 17 HOH HOH . G 4 HOH A 32 1332 9 HOH HOH . G 4 HOH A 33 1333 47 HOH HOH . G 4 HOH A 34 1334 124 HOH HOH . G 4 HOH A 35 1335 46 HOH HOH . G 4 HOH A 36 1336 90 HOH HOH . G 4 HOH A 37 1337 15 HOH HOH . G 4 HOH A 38 1338 20 HOH HOH . G 4 HOH A 39 1339 5 HOH HOH . G 4 HOH A 40 1340 141 HOH HOH . G 4 HOH A 41 1341 116 HOH HOH . G 4 HOH A 42 1342 71 HOH HOH . G 4 HOH A 43 1343 29 HOH HOH . G 4 HOH A 44 1344 109 HOH HOH . G 4 HOH A 45 1345 138 HOH HOH . G 4 HOH A 46 1346 22 HOH HOH . G 4 HOH A 47 1347 123 HOH HOH . G 4 HOH A 48 1348 121 HOH HOH . G 4 HOH A 49 1349 50 HOH HOH . G 4 HOH A 50 1350 23 HOH HOH . G 4 HOH A 51 1351 142 HOH HOH . G 4 HOH A 52 1352 153 HOH HOH . G 4 HOH A 53 1353 68 HOH HOH . G 4 HOH A 54 1354 75 HOH HOH . G 4 HOH A 55 1355 4 HOH HOH . G 4 HOH A 56 1356 99 HOH HOH . G 4 HOH A 57 1357 125 HOH HOH . G 4 HOH A 58 1358 56 HOH HOH . G 4 HOH A 59 1359 110 HOH HOH . G 4 HOH A 60 1360 76 HOH HOH . G 4 HOH A 61 1361 52 HOH HOH . G 4 HOH A 62 1362 54 HOH HOH . G 4 HOH A 63 1363 113 HOH HOH . G 4 HOH A 64 1364 97 HOH HOH . G 4 HOH A 65 1365 127 HOH HOH . G 4 HOH A 66 1366 83 HOH HOH . G 4 HOH A 67 1367 128 HOH HOH . G 4 HOH A 68 1368 40 HOH HOH . G 4 HOH A 69 1369 62 HOH HOH . G 4 HOH A 70 1370 84 HOH HOH . G 4 HOH A 71 1371 144 HOH HOH . G 4 HOH A 72 1372 45 HOH HOH . G 4 HOH A 73 1373 12 HOH HOH . G 4 HOH A 74 1374 104 HOH HOH . G 4 HOH A 75 1375 143 HOH HOH . G 4 HOH A 76 1376 114 HOH HOH . G 4 HOH A 77 1377 154 HOH HOH . G 4 HOH A 78 1378 136 HOH HOH . G 4 HOH A 79 1379 146 HOH HOH . G 4 HOH A 80 1380 133 HOH HOH . G 4 HOH A 81 1381 94 HOH HOH . G 4 HOH A 82 1382 140 HOH HOH . G 4 HOH A 83 1383 132 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 E _atom_site.label_entity_id 3 _atom_site.Cartn_x 36.211 _atom_site.Cartn_y 74.955 _atom_site.Cartn_z 174.477 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 52.88 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CD _atom_site.auth_comp_id CD _atom_site.auth_seq_id 1207 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #