data_6YOM # _model_server_result.job_id TPhpP-TxggvK3IkDM0QQsg _model_server_result.datetime_utc '2024-11-17 12:34:59' _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 6yom # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":703}' # _entry.id 6YOM # _exptl.entry_id 6YOM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 54.938 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MANGANESE (II) 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 6YOM _cell.length_a 105.298 _cell.length_b 105.298 _cell.length_c 195.629 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YOM _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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,M,N,O,P _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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 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 metalc ? metalc1 A NE2 HIS 61 A HIS 167 1_555 C FE FE . A FE 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc2 A NE2 HIS 100 A HIS 206 1_555 C FE FE . A FE 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc3 A OD2 ASP 101 A ASP 207 1_555 C FE FE . A FE 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc4 A OD1 ASP 101 A ASP 207 1_555 D MN MN . A MN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc5 A NE2 HIS 127 A HIS 233 1_555 D MN MN . A MN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? metalc ? metalc6 A OD1 ASP 205 A ASP 311 1_555 C FE FE . A FE 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc7 C FE FE . A FE 701 1_555 G O2A 0KX . A 0KX 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc8 D MN MN . A MN 702 1_555 G O1A 0KX . A 0KX 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc9 E MG MG . A MG 703 1_555 G O3G 0KX . A 0KX 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? metalc ? metalc10 E MG MG . A MG 703 1_555 G O1B 0KX . A 0KX 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? metalc ? metalc11 F MG MG . A MG 704 1_555 H O9 CZF . A CZF 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc12 F MG MG . A MG 704 1_555 H O12 CZF . A CZF 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? metalc ? metalc13 F MG MG . A MG 704 1_555 H O14 CZF . A CZF 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc14 F MG MG . A MG 704 1_555 J O2B DTP . B DTP 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc15 F MG MG . A MG 704 1_555 J O1G DTP . B DTP 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc16 I O3G DTP . A DTP 707 1_555 N MG MG . B MG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc17 I O1B DTP . A DTP 707 1_555 N MG MG . B MG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? metalc ? metalc18 B NE2 HIS 61 B HIS 167 1_555 K FE FE . B FE 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc19 B NE2 HIS 100 B HIS 206 1_555 K FE FE . B FE 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc20 B OD2 ASP 101 B ASP 207 1_555 K FE FE . B FE 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc21 B OD1 ASP 101 B ASP 207 1_555 L MN MN . B MN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc22 B NE2 HIS 127 B HIS 233 1_555 L MN MN . B MN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc23 B OD1 ASP 205 B ASP 311 1_555 K FE FE . B FE 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc24 K FE FE . B FE 702 1_555 O O2A 0KX . B 0KX 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc25 L MN MN . B MN 703 1_555 O O1A 0KX . B 0KX 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc26 M MG MG . B MG 704 1_555 O O1B 0KX . B 0KX 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc27 M MG MG . B MG 704 1_555 O O3G 0KX . B 0KX 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? metalc ? metalc28 N MG MG . B MG 705 1_555 P O9 CZF . B CZF 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc29 N MG MG . B MG 705 1_555 P O14 CZF . B CZF 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc30 N MG MG . B MG 705 1_555 P O12 CZF . B CZF 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? # _chem_comp.formula 'Mn 2' _chem_comp.formula_weight 54.938 _chem_comp.id MN _chem_comp.mon_nstd_flag . _chem_comp.name 'MANGANESE (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6YOM _atom_sites.fract_transf_matrix[1][1] 0.009497 _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] 0.009497 _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] 0.005112 _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 2 FE A 1 701 701 FE FE . D 3 MN A 1 702 702 MN MN . E 4 MG A 1 703 703 MG MG . F 4 MG A 1 704 704 MG MG . G 5 0KX A 1 705 801 0KX dCN . H 6 CZF A 1 706 802 CZF XTP . I 7 DTP A 1 707 803 DTP DTP . J 7 DTP B 1 701 803 DTP DTP . K 2 FE B 1 702 701 FE FE . L 3 MN B 1 703 702 MN MN . M 4 MG B 1 704 703 MG MG . N 4 MG B 1 705 704 MG MG . O 5 0KX B 1 706 801 0KX dCN . P 6 CZF B 1 707 802 CZF XTP . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MN _atom_site.label_atom_id MN _atom_site.label_comp_id MN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id L _atom_site.label_entity_id 3 _atom_site.Cartn_x -9.523 _atom_site.Cartn_y -9.481 _atom_site.Cartn_z -24.174 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 61.7 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 703 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 131 _model_server_stats.parse_time_ms 176 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 858 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 1 #