data_7KEM # _model_server_result.job_id ECjOQCtSQoBQI714v1wP2A _model_server_result.datetime_utc '2025-08-31 06:36:10' _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 7kem # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":505}' # _entry.id 7KEM # _exptl.entry_id 7KEM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 147.129 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'D-GLUTAMIC ACID' _entity.pdbx_number_of_molecules 1 _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 7KEM _cell.length_a 117.528 _cell.length_b 121.051 _cell.length_c 122.699 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KEM _symmetry.cell_setting ? _symmetry.Int_Tables_number 24 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G 1 1 B,H,I,J,K,L,M 2 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 G CD DGL . A DGL 505 1_555 H N 6CL . B 6CL 501 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.336 ? covale ? covale2 G CD DGL . A DGL 505 1_555 H N 6CL . B 6CL 501 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.226 ? metalc ? metalc1 A SD MET 157 A MET 157 1_555 D PT1 0JC . A 0JC 502 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.736 ? metalc ? metalc2 A ND1 HIS 347 A HIS 347 1_555 C PT1 0JC . A 0JC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc3 B SD MET 153 B MET 153 1_555 M PT1 0JC . B 0JC 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.846 ? metalc ? metalc4 B ND1 HIS 347 B HIS 347 1_555 J PT1 0JC . B 0JC 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? # _chem_comp.formula 'C5 H9 N O4' _chem_comp.formula_weight 147.129 _chem_comp.id DGL _chem_comp.mon_nstd_flag . _chem_comp.name 'D-GLUTAMIC ACID' _chem_comp.type 'd-peptide linking' _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 N CA DGL sing 140 n n N H DGL sing 141 n n N H2 DGL sing 142 n n CA C DGL sing 143 n n CA CB DGL sing 144 n n CA HA DGL sing 145 n n C O DGL doub 146 n n C OXT DGL sing 147 n n CB CG DGL sing 148 n n CB HB2 DGL sing 149 n n CB HB3 DGL sing 150 n n CG CD DGL sing 151 n n CG HG2 DGL sing 152 n n CG HG3 DGL sing 153 n n CD OE1 DGL doub 154 n n CD OE2 DGL sing 155 n n OE2 HE2 DGL sing 156 n n OXT HXT DGL sing 157 n n # _atom_sites.entry_id 7KEM _atom_sites.fract_transf_matrix[1][1] 0.008509 _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] 0.008261 _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] 0.00815 _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 0JC A 1 501 501 0JC 0JC . D 2 0JC A 1 502 502 0JC 0JC . E 2 0JC A 1 503 503 0JC 0JC . F 2 0JC A 1 504 504 0JC 0JC . G 3 DGL A 1 505 505 DGL DGL . H 4 6CL B 1 501 506 6CL 6CL . I 5 PT B 1 502 501 PT PT . J 2 0JC B 1 503 502 0JC 0JC . K 2 0JC B 1 504 503 0JC 0JC . L 2 0JC B 1 505 504 0JC 0JC . M 2 0JC B 1 506 505 0JC 0JC . # 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 N N DGL . A . G 3 132.953 131.267 22.65 0 47.96 ? N DGL 505 A 1 HETATM 2 N N DGL . B . G 3 131.959 128.36 19.787 0 55.23 ? N DGL 505 A 1 HETATM 3 C CA DGL . A . G 3 132.049 131.511 21.471 0 47.92 ? CA DGL 505 A 1 HETATM 4 C CA DGL . B . G 3 132.532 129.669 19.347 0 54.84 ? CA DGL 505 A 1 HETATM 5 C C DGL . A . G 3 132.391 130.605 20.246 0 48.59 ? C DGL 505 A 1 HETATM 6 C C DGL . B . G 3 132.446 130.685 20.487 0 55.65 ? C DGL 505 A 1 HETATM 7 O O DGL . A . G 3 132.103 130.958 19.096 0 48.76 ? O DGL 505 A 1 HETATM 8 O O DGL . B . G 3 133.441 130.958 21.152 0 56.37 ? O DGL 505 A 1 HETATM 9 C CB DGL . A . G 3 130.574 131.328 21.892 0 46.94 ? CB DGL 505 A 1 HETATM 10 C CB DGL . B . G 3 133.978 129.523 18.817 0 53.82 ? CB DGL 505 A 1 HETATM 11 C CG DGL . A . G 3 129.802 132.287 22.961 0 42.4 ? CG DGL 505 A 1 HETATM 12 C CG DGL . B . G 3 134.743 128.162 18.991 0 48.58 ? CG DGL 505 A 1 HETATM 13 C CD DGL . A . G 3 128.334 131.801 22.942 0 37.2 ? CD DGL 505 A 1 HETATM 14 C CD DGL . B . G 3 136.181 128.416 19.472 0 39.94 ? CD DGL 505 A 1 HETATM 15 O OE1 DGL . A . G 3 128.475 130.819 22.194 0 38.75 ? OE1 DGL 505 A 1 HETATM 16 O OE1 DGL . B . G 3 136.244 129.638 19.701 0 44.17 ? OE1 DGL 505 A 1 HETATM 17 O OXT DGL . A . G 3 132.988 129.512 20.379 0 48.98 ? OXT DGL 505 A 1 HETATM 18 O OXT DGL . B . G 3 131.377 131.242 20.758 0 55.37 ? OXT DGL 505 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 18 #