data_6GEM # _model_server_result.job_id cR0hCcP2v0GYIKHmMk2TSg _model_server_result.datetime_utc '2024-10-19 23:42:12' _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 6gem # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":302}' # _entry.id 6GEM # _exptl.entry_id 6GEM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 146.098 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-OXOGLUTARIC ACID' _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 126.91 _cell.angle_gamma 90 _cell.entry_id 6GEM _cell.length_a 195.83 _cell.length_b 155.451 _cell.length_c 133.234 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GEM _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 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,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 ? 3 F N N ? 3 H N N ? 3 J 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 182 A HIS 164 1_555 E FE FE . A FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.652 ? metalc ? metalc2 E FE FE . A FE 301 1_555 F O5 AKG . A AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? metalc ? metalc3 E FE FE . A FE 301 1_555 F O2 AKG . A AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? metalc ? metalc4 B NE2 HIS 182 B HIS 164 1_555 G FE FE . B FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc5 G FE FE . B FE 301 1_555 H O5 AKG . B AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? metalc ? metalc6 G FE FE . B FE 301 1_555 H O2 AKG . B AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc7 C NE2 HIS 182 C HIS 164 1_555 I FE FE . C FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc8 C NE2 HIS 277 C HIS 259 1_555 I FE FE . C FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.626 ? metalc ? metalc9 I FE FE . C FE 301 1_555 J O1 AKG . C AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.913 ? metalc ? metalc10 I FE FE . C FE 301 1_555 J O5 AKG . C AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc11 D NE2 HIS 182 D HIS 164 1_555 K FE FE . D FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? metalc ? metalc12 D NE2 HIS 277 D HIS 259 1_555 K FE FE . D FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? metalc ? metalc13 K FE FE . D FE 301 1_555 L O1 AKG . D AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc14 K FE FE . D FE 301 1_555 L O5 AKG . D AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? # _chem_comp.formula 'C5 H6 O5' _chem_comp.formula_weight 146.098 _chem_comp.id AKG _chem_comp.mon_nstd_flag . _chem_comp.name '2-OXOGLUTARIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 O1 AKG doub 1 n n C1 O2 AKG sing 2 n n C1 C2 AKG sing 3 n n O2 HO2 AKG sing 4 n n C2 O5 AKG doub 5 n n C2 C3 AKG sing 6 n n C3 C4 AKG sing 7 n n C3 H31 AKG sing 8 n n C3 H32 AKG sing 9 n n C4 C5 AKG sing 10 n n C4 H41 AKG sing 11 n n C4 H42 AKG sing 12 n n C5 O3 AKG doub 13 n n C5 O4 AKG sing 14 n n O4 HO4 AKG sing 15 n n # _atom_sites.entry_id 6GEM _atom_sites.fract_transf_matrix[1][1] 0.005106 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003836 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006433 _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] 0.009387 _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 FE A 1 301 301 FE FE . F 3 AKG A 1 302 302 AKG AKG . G 2 FE B 1 301 301 FE FE . H 3 AKG B 1 302 302 AKG AKG . I 2 FE C 1 301 301 FE FE . J 3 AKG C 1 302 302 AKG AKG . K 2 FE D 1 301 301 FE FE . L 3 AKG D 1 302 302 AKG AKG . # 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 C C1 AKG . . . L 3 -21.837 18.226 9.836 1 45.39 ? C1 AKG 302 D 1 HETATM 2 O O1 AKG . . . L 3 -21.49 18.452 8.633 1 33.49 ? O1 AKG 302 D 1 HETATM 3 O O2 AKG . . . L 3 -22.102 17.046 10.205 1 38.43 ? O2 AKG 302 D 1 HETATM 4 C C2 AKG . . . L 3 -21.923 19.357 10.858 1 46.48 ? C2 AKG 302 D 1 HETATM 5 O O5 AKG . . . L 3 -22.505 20.394 10.581 1 34.7 ? O5 AKG 302 D 1 HETATM 6 C C3 AKG . . . L 3 -21.276 19.196 12.226 1 35.62 ? C3 AKG 302 D 1 HETATM 7 C C4 AKG . . . L 3 -19.823 19.631 12.099 1 47.75 ? C4 AKG 302 D 1 HETATM 8 C C5 AKG . . . L 3 -18.908 18.777 12.969 1 36.16 ? C5 AKG 302 D 1 HETATM 9 O O3 AKG . . . L 3 -17.894 18.178 12.456 1 29.42 ? O3 AKG 302 D 1 HETATM 10 O O4 AKG . . . L 3 -19.177 18.698 14.208 1 22.86 ? O4 AKG 302 D 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 10 #