data_4Q5O # _model_server_result.job_id 9TJsa-9mn-YESmn-4EGKlQ _model_server_result.datetime_utc '2024-10-19 10:22:29' _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 4q5o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 4Q5O # _exptl.entry_id 4Q5O _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 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 4Q5O _cell.length_a 81.004 _cell.length_b 87.076 _cell.length_c 94.879 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4Q5O _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 D 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 metalc ? metalc1 A NE2 HIS 152 A HIS 144 1_555 C FE FE . A FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc2 A OD1 ASP 154 A ASP 146 1_555 C FE FE . A FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc3 A NE2 HIS 253 A HIS 245 1_555 C FE FE . A FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc4 C FE FE . A FE 401 1_555 D O5 AKG . A AKG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc5 C FE FE . A FE 401 1_555 E OG1 6CS . A 6CS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc6 B NE2 HIS 152 B HIS 144 1_555 F FE FE . B FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc7 B OD1 ASP 154 B ASP 146 1_555 F FE FE . B FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc8 B OD2 ASP 154 B ASP 146 1_555 F FE FE . B FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc9 B NE2 HIS 253 B HIS 245 1_555 F FE FE . B FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc10 F FE FE . B FE 401 1_555 G O5 AKG . B AKG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc11 F FE FE . B FE 401 1_555 G O2 AKG . B AKG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? # _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 22 n n C1 O2 AKG sing 23 n n C1 C2 AKG sing 24 n n O2 HO2 AKG sing 25 n n C2 O5 AKG doub 26 n n C2 C3 AKG sing 27 n n C3 C4 AKG sing 28 n n C3 H31 AKG sing 29 n n C3 H32 AKG sing 30 n n C4 C5 AKG sing 31 n n C4 H41 AKG sing 32 n n C4 H42 AKG sing 33 n n C5 O3 AKG doub 34 n n C5 O4 AKG sing 35 n n O4 HO4 AKG sing 36 n n # _atom_sites.entry_id 4Q5O _atom_sites.fract_transf_matrix[1][1] 0.012345 _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] 0.011484 _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] 0.01054 _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 1 401 1 FE FE . D 3 AKG A 1 402 1 AKG AKG . E 4 6CS A 1 403 1 6CS 6CS . F 2 FE B 1 401 2 FE FE . G 3 AKG B 1 402 1 AKG AKG . H 4 6CS B 1 403 1 6CS 6CS . I 5 HOH A 1 501 1 HOH HOH . I 5 HOH A 2 502 2 HOH HOH . I 5 HOH A 3 503 4 HOH HOH . I 5 HOH A 4 504 5 HOH HOH . I 5 HOH A 5 505 8 HOH HOH . I 5 HOH A 6 506 11 HOH HOH . I 5 HOH A 7 507 12 HOH HOH . I 5 HOH A 8 508 16 HOH HOH . I 5 HOH A 9 509 17 HOH HOH . I 5 HOH A 10 510 18 HOH HOH . I 5 HOH A 11 511 22 HOH HOH . I 5 HOH A 12 512 24 HOH HOH . I 5 HOH A 13 513 25 HOH HOH . I 5 HOH A 14 514 28 HOH HOH . J 5 HOH B 1 501 3 HOH HOH . J 5 HOH B 2 502 6 HOH HOH . J 5 HOH B 3 503 7 HOH HOH . J 5 HOH B 4 504 9 HOH HOH . J 5 HOH B 5 505 10 HOH HOH . J 5 HOH B 6 506 13 HOH HOH . J 5 HOH B 7 507 14 HOH HOH . J 5 HOH B 8 508 15 HOH HOH . J 5 HOH B 9 509 19 HOH HOH . J 5 HOH B 10 510 20 HOH HOH . J 5 HOH B 11 511 21 HOH HOH . J 5 HOH B 12 512 23 HOH HOH . J 5 HOH B 13 513 26 HOH HOH . J 5 HOH B 14 514 27 HOH HOH . J 5 HOH B 15 515 29 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 C C1 AKG . . . D 3 -30.651 19.249 -19.959 1 84.35 ? C1 AKG 402 A 1 HETATM 2 O O1 AKG . . . D 3 -30.47 20.08 -20.9 1 76.74 ? O1 AKG 402 A 1 HETATM 3 O O2 AKG . . . D 3 -31.843 18.931 -19.648 1 81.19 ? O2 AKG 402 A 1 HETATM 4 C C2 AKG . . . D 3 -29.451 18.647 -19.208 1 78.6 ? C2 AKG 402 A 1 HETATM 5 O O5 AKG . . . D 3 -29.349 18.723 -17.994 1 66.95 ? O5 AKG 402 A 1 HETATM 6 C C3 AKG . . . D 3 -28.347 17.93 -19.956 1 71.42 ? C3 AKG 402 A 1 HETATM 7 C C4 AKG . . . D 3 -27.118 18.798 -19.892 1 72.07 ? C4 AKG 402 A 1 HETATM 8 C C5 AKG . . . D 3 -27.404 20.039 -20.715 1 86.34 ? C5 AKG 402 A 1 HETATM 9 O O3 AKG . . . D 3 -27.118 20.044 -21.944 1 90.97 ? O3 AKG 402 A 1 HETATM 10 O O4 AKG . . . D 3 -27.93 21.062 -20.184 1 84.8 ? O4 AKG 402 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 10 #