data_4NEF # _model_server_result.job_id ZSth3gnBEUDviG18wrUWXw _model_server_result.datetime_utc '2024-11-13 08:57:35' _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 4nef # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 4NEF # _exptl.entry_id 4NEF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 112.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CADMIUM 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 4NEF _cell.length_a 119.11 _cell.length_b 119.11 _cell.length_c 90.621 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NEF _symmetry.cell_setting ? _symmetry.Int_Tables_number 77 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,H,I,J,K _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 G 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 disulf ? disulf1 C SG CYS 75 C CYS 75 1_555 C SG CYS 79 C CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf2 D SG CYS 75 D CYS 75 1_555 D SG CYS 79 D CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc1 A SG CYS 75 A CYS 75 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc2 A OE2 GLU 155 A GLU 155 1_555 E CD CD . A CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc3 A OE1 GLU 155 A GLU 155 1_555 E CD CD . A CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc4 E CD CD . A CD 301 1_555 H O HOH . A HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc5 E CD CD . A CD 301 1_555 D OE1 GLN 57 D GLN 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc6 E CD CD . A CD 301 1_555 K O HOH . D HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? metalc ? metalc7 F ZN ZN . A ZN 302 1_555 H O HOH . A HOH 413 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? # _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 4NEF _atom_sites.fract_transf_matrix[1][1] 0.008396 _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] 0.008396 _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] 0.011035 _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 E 2 CD A 1 301 1 CD CD . F 3 ZN A 1 302 5 ZN ZN . G 2 CD D 1 301 2 CD CD . H 4 HOH A 1 401 2 HOH HOH . H 4 HOH A 2 402 3 HOH HOH . H 4 HOH A 3 403 11 HOH HOH . H 4 HOH A 4 404 48 HOH HOH . H 4 HOH A 5 405 105 HOH HOH . H 4 HOH A 6 406 114 HOH HOH . H 4 HOH A 7 407 115 HOH HOH . H 4 HOH A 8 408 198 HOH HOH . H 4 HOH A 9 409 203 HOH HOH . H 4 HOH A 10 410 204 HOH HOH . H 4 HOH A 11 411 214 HOH HOH . H 4 HOH A 12 412 216 HOH HOH . H 4 HOH A 13 413 222 HOH HOH . H 4 HOH A 14 414 240 HOH HOH . H 4 HOH A 15 415 241 HOH HOH . H 4 HOH A 16 416 243 HOH HOH . H 4 HOH A 17 417 246 HOH HOH . H 4 HOH A 18 418 248 HOH HOH . H 4 HOH A 19 419 261 HOH HOH . I 4 HOH B 1 301 1 HOH HOH . I 4 HOH B 2 302 5 HOH HOH . I 4 HOH B 3 303 6 HOH HOH . I 4 HOH B 4 304 9 HOH HOH . I 4 HOH B 5 305 21 HOH HOH . I 4 HOH B 6 306 30 HOH HOH . I 4 HOH B 7 307 47 HOH HOH . I 4 HOH B 8 308 49 HOH HOH . I 4 HOH B 9 309 207 HOH HOH . I 4 HOH B 10 310 211 HOH HOH . I 4 HOH B 11 311 212 HOH HOH . I 4 HOH B 12 312 221 HOH HOH . I 4 HOH B 13 313 259 HOH HOH . I 4 HOH B 14 314 260 HOH HOH . J 4 HOH C 1 301 16 HOH HOH . J 4 HOH C 2 302 32 HOH HOH . J 4 HOH C 3 303 44 HOH HOH . J 4 HOH C 4 304 46 HOH HOH . J 4 HOH C 5 305 197 HOH HOH . J 4 HOH C 6 306 200 HOH HOH . J 4 HOH C 7 307 208 HOH HOH . J 4 HOH C 8 308 251 HOH HOH . J 4 HOH C 9 309 253 HOH HOH . J 4 HOH C 10 310 255 HOH HOH . J 4 HOH C 11 311 256 HOH HOH . J 4 HOH C 12 312 257 HOH HOH . J 4 HOH C 13 313 258 HOH HOH . K 4 HOH D 1 401 7 HOH HOH . K 4 HOH D 2 402 15 HOH HOH . K 4 HOH D 3 403 23 HOH HOH . K 4 HOH D 4 404 24 HOH HOH . K 4 HOH D 5 405 28 HOH HOH . K 4 HOH D 6 406 42 HOH HOH . K 4 HOH D 7 407 43 HOH HOH . K 4 HOH D 8 408 102 HOH HOH . K 4 HOH D 9 409 104 HOH HOH . K 4 HOH D 10 410 109 HOH HOH . K 4 HOH D 11 411 110 HOH HOH . K 4 HOH D 12 412 112 HOH HOH . K 4 HOH D 13 413 245 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 2 _atom_site.Cartn_x 53.211 _atom_site.Cartn_y 102.173 _atom_site.Cartn_z 5.28 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 48.45 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CD _atom_site.auth_comp_id CD _atom_site.auth_seq_id 301 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #