data_4BPI # _model_server_result.job_id W3HFAQkzXifiD4iol0Uu2Q _model_server_result.datetime_utc '2024-12-22 01:36:58' _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 4bpi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1324}' # _entry.id 4BPI # _exptl.entry_id 4BPI _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 5 _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 4BPI _cell.length_a 53.78 _cell.length_b 53.78 _cell.length_c 93.965 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4BPI _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 5_555 x-y,-y,-z+1/3 1 0 0 0 -1 0 0 0 -1 0 0 31.321667 # 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 ? 3 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 covale ? covale1 B C GLU 2 B GLU 88 1_555 B N B3E 3 B B3E 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale2 B C B3E 3 B B3E 89 1_555 B N ILE 4 B ILE 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 B C ALA 6 B ALA 92 1_555 B N B3Q 7 B B3Q 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale4 B C B3Q 7 B B3Q 93 1_555 B N LEU 8 B LEU 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale5 B C ARG 9 B ARG 95 1_555 B N HR7 10 B HR7 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale6 B C HR7 10 B HR7 96 1_555 B N MET 11 B MET 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale7 B C ASP 13 B ASP 99 1_555 B N B3D 14 B B3D 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale8 B C B3D 14 B B3D 100 1_555 B N LEU 15 B LEU 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale9 B C ASN 16 B ASN 102 1_555 B N B3A 17 B B3A 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale10 B C B3A 17 B B3A 103 1_555 B N GLN 18 B GLN 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? metalc ? metalc1 A O ASP 71 A ASP 236 1_555 F CD CD . A CD 1326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc2 A O ILE 72 A ILE 237 1_555 F CD CD . A CD 1326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc3 A OE1 GLU 75 A GLU 240 1_555 D CD CD . A CD 1324 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.376 ? metalc ? metalc4 A NE2 HIS 87 A HIS 252 1_555 E CD CD . A CD 1325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc5 A ND1 HIS 112 A HIS 277 1_555 C CD CD . A CD 1323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc6 A NE2 HIS 112 A HIS 277 1_555 F CD CD . A CD 1326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc7 A SG CYS 121 A CYS 286 4_555 D CD CD . A CD 1324 1_555 ? ? ? ? A ? ? ? ? ? ? ? 3.027 ? metalc ? metalc8 A SG CYS 121 A CYS 286 1_555 D CD CD . A CD 1324 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.97 ? metalc ? metalc9 A SG CYS 121 A CYS 286 1_555 D CD CD . A CD 1324 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.997 ? metalc ? metalc10 A OE1 GLU 123 A GLU 288 4_555 D CD CD . A CD 1324 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.301 ? metalc ? metalc11 A OE2 GLU 123 A GLU 288 4_555 D CD CD . A CD 1324 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.099 ? metalc ? metalc12 A OD2 ASP 139 A ASP 304 5_555 E CD CD . A CD 1325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc13 A OD1 ASP 139 A ASP 304 5_555 E CD CD . A CD 1325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc14 C CD CD . A CD 1323 1_555 H O HOH . A HOH 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc15 C CD CD . A CD 1323 1_555 B OE1 B3D 14 B B3D 100 5_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.586 ? metalc ? metalc16 C CD CD . A CD 1323 1_555 B OE2 B3D 14 B B3D 100 5_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.699 ? metalc ? metalc17 C CD CD . A CD 1323 5_545 B OE2 B3D 14 B B3D 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.699 ? metalc ? metalc18 C CD CD . A CD 1323 5_545 B OE1 B3D 14 B B3D 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.586 ? metalc ? metalc19 D CD CD . A CD 1324 1_555 H O HOH . A HOH 2015 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc20 D CD CD . A CD 1324 1_555 H O HOH . A HOH 2016 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc21 D CD CD . A CD 1324 1_555 H O HOH . A HOH 2016 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc22 E CD CD . A CD 1325 1_555 B OF1 B3E 3 B B3E 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc23 E CD CD . A CD 1325 1_555 B OF2 B3E 3 B B3E 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc24 G CD CD . A CD 1327 1_555 H O HOH . A HOH 2017 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.908 ? metalc ? metalc25 G CD CD . A CD 1327 1_555 B OE2 GLU 2 B GLU 88 5_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.029 ? # _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 4BPI _atom_sites.fract_transf_matrix[1][1] 0.018594 _atom_sites.fract_transf_matrix[1][2] 0.010735 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021471 _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] 0.010642 _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 1323 1323 CD CD . D 3 CD A 1 1324 1324 CD CD . E 3 CD A 1 1325 1325 CD CD . F 3 CD A 1 1326 1326 CD CD . G 3 CD A 1 1327 1327 CD CD . H 4 HOH A 1 2001 2001 HOH HOH . H 4 HOH A 2 2002 2002 HOH HOH . H 4 HOH A 3 2003 2003 HOH HOH . H 4 HOH A 4 2004 2004 HOH HOH . H 4 HOH A 5 2005 2005 HOH HOH . H 4 HOH A 6 2006 2006 HOH HOH . H 4 HOH A 7 2007 2007 HOH HOH . H 4 HOH A 8 2008 2008 HOH HOH . H 4 HOH A 9 2009 2009 HOH HOH . H 4 HOH A 10 2010 2010 HOH HOH . H 4 HOH A 11 2011 2011 HOH HOH . H 4 HOH A 12 2012 2012 HOH HOH . H 4 HOH A 13 2013 2013 HOH HOH . H 4 HOH A 14 2014 2014 HOH HOH . H 4 HOH A 15 2015 2015 HOH HOH . H 4 HOH A 16 2016 2016 HOH HOH . H 4 HOH A 17 2017 2017 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 CD CD CD . A . D 3 -10.728 -14.873 0.284 0.71 59.8 ? CD CD 1324 A 1 HETATM 2 CD CD CD . B . D 3 -11.571 -15.66 3.685 0.29 43.58 ? CD CD 1324 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 2 #