data_1Y1L # _model_server_result.job_id QWAow-rQXVDCTiU5AgJ3sw _model_server_result.datetime_utc '2025-02-27 01:10:19' _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 1y1l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":125}' # _entry.id 1Y1L # _exptl.entry_id 1Y1L _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 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 100 _cell.angle_beta 90.7 _cell.angle_gamma 100 _cell.entry_id 1Y1L _cell.length_a 48.39 _cell.length_b 48.51 _cell.length_c 66.37 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Y1L _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _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,L _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 F N N ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L 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 A SG CYS 77 A CYS 77 1_555 A SG CYS 82 A CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.878 ? disulf ? disulf2 B SG CYS 77 B CYS 77 1_555 B SG CYS 82 B CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.845 ? disulf ? disulf3 C SG CYS 77 C CYS 77 1_555 C SG CYS 82 C CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.873 ? disulf ? disulf4 D SG CYS 77 D CYS 77 1_555 D SG CYS 82 D CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? metalc ? metalc1 A ND1 HIS 8 A HIS 8 1_555 E CD CD . A CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? metalc ? metalc2 A NE2 HIS 8 A HIS 8 1_555 E CD CD . A CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc3 A OE2 GLU 35 A GLU 35 1_555 K CD CD . D CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc4 A OE1 GLU 35 A GLU 35 1_555 K CD CD . D CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc5 A OD1 ASP 88 A ASP 88 1_555 F CD CD . B CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc6 A OD2 ASP 88 A ASP 88 1_555 F CD CD . B CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc7 A NE2 HIS 95 A HIS 95 1_555 H CD CD . B CD 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc8 E CD CD . A CD 125 1_555 D OE1 GLU 35 D GLU 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc9 E CD CD . A CD 125 1_555 D OE2 GLU 35 D GLU 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? metalc ? metalc10 B NE2 HIS 8 B HIS 8 1_555 G CD CD . B CD 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc11 B ND1 HIS 8 B HIS 8 1_555 G CD CD . B CD 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc12 B OE2 GLU 35 B GLU 35 1_555 I CD CD . C CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc13 B OE1 GLU 35 B GLU 35 1_555 I CD CD . C CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc14 B OD2 ASP 88 B ASP 88 1_555 H CD CD . B CD 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc15 B OD1 ASP 88 B ASP 88 1_555 H CD CD . B CD 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc16 B NE2 HIS 95 B HIS 95 1_555 F CD CD . B CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc17 G CD CD . B CD 126 1_555 C OE1 GLU 35 C GLU 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc18 G CD CD . B CD 126 1_555 C OE2 GLU 35 C GLU 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? metalc ? metalc19 C NE2 HIS 8 C HIS 8 1_555 I CD CD . C CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc20 C ND1 HIS 8 C HIS 8 1_555 I CD CD . C CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc21 C OD2 ASP 88 C ASP 88 1_555 J CD CD . C CD 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc22 C OD1 ASP 88 C ASP 88 1_555 J CD CD . C CD 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc23 C NE2 HIS 95 C HIS 95 1_555 L CD CD . D CD 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc24 J CD CD . C CD 126 1_555 D NE2 HIS 95 D HIS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc25 D ND1 HIS 8 D HIS 8 1_555 K CD CD . D CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc26 D NE2 HIS 8 D HIS 8 1_555 K CD CD . D CD 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc27 D OD2 ASP 88 D ASP 88 1_555 L CD CD . D CD 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? metalc ? metalc28 D OD1 ASP 88 D ASP 88 1_555 L CD CD . D CD 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? # _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 1Y1L _atom_sites.fract_transf_matrix[1][1] 0.020665 _atom_sites.fract_transf_matrix[1][2] 0.003644 _atom_sites.fract_transf_matrix[1][3] 0.000918 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020932 _atom_sites.fract_transf_matrix[2][3] 0.003797 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015314 _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 1 125 1 CD CD . F 2 CD B 1 125 2 CD CD . G 2 CD B 1 126 3 CD CD . H 2 CD B 1 127 4 CD CD . I 2 CD C 1 125 5 CD CD . J 2 CD C 1 126 6 CD CD . K 2 CD D 1 125 7 CD CD . L 2 CD D 1 126 8 CD CD . # _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 -8.266 _atom_site.Cartn_y 8.819 _atom_site.Cartn_z -4.444 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 2.66 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CD _atom_site.auth_comp_id CD _atom_site.auth_seq_id 125 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #