data_5LDH # _model_server_result.job_id LteyNj1rT7O6Lq5KE-3Thw _model_server_result.datetime_utc '2024-11-08 08:34:18' _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 5ldh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":333}' # _entry.id 5LDH # _exptl.entry_id 5LDH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 192.124 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CITRIC 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 120 _cell.entry_id 5LDH _cell.length_a 133.6 _cell.length_b 133.6 _cell.length_c 113.5 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LDH _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 _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' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 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 F 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 A C ACE 1 A ACE 0 1_555 A N ALA 2 A ALA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale2 A NE2 HIS 187 A HIS 188 1_555 D O5 CIT . A CIT 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.836 ? covale ? covale3 A CD2 HIS 187 A HIS 188 1_555 D O4 CIT . A CIT 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.924 ? covale ? covale4 B C ACE 1 B ACE 0 1_555 B N ALA 2 B ALA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale5 B CD2 HIS 187 B HIS 188 1_555 F O4 CIT . B CIT 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? covale ? covale6 B NE2 HIS 187 B HIS 188 1_555 F O5 CIT . B CIT 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.836 ? # _chem_comp.formula 'C6 H8 O7' _chem_comp.formula_weight 192.124 _chem_comp.id CIT _chem_comp.mon_nstd_flag . _chem_comp.name 'CITRIC 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 CIT doub 76 n n C1 O2 CIT sing 77 n n C1 C2 CIT sing 78 n n O2 HO2 CIT sing 79 n n C2 C3 CIT sing 80 n n C2 H21 CIT sing 81 n n C2 H22 CIT sing 82 n n C3 O7 CIT sing 83 n n C3 C4 CIT sing 84 n n C3 C6 CIT sing 85 n n O7 HO7 CIT sing 86 n n C4 C5 CIT sing 87 n n C4 H41 CIT sing 88 n n C4 H42 CIT sing 89 n n C5 O3 CIT doub 90 n n C5 O4 CIT sing 91 n n O4 HO4 CIT sing 92 n n C6 O5 CIT doub 93 n n C6 O6 CIT sing 94 n n O6 HO6 CIT sing 95 n n # _atom_sites.entry_id 5LDH _atom_sites.fract_transf_matrix[1][1] 0.007485 _atom_sites.fract_transf_matrix[1][2] 0.004321 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008643 _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] 0.008811 _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 LNC A 1 332 1 LNC NAL . D 3 CIT A 1 333 2 CIT CIT . E 2 LNC B 1 332 1 LNC NAL . F 3 CIT B 1 333 2 CIT CIT . # 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 CIT . . . D 3 -43.645 -40.391 -7.385 1 0 ? C1 CIT 333 A 1 HETATM 2 O O1 CIT . . . D 3 -43.536 -39.357 -6.585 1 0 ? O1 CIT 333 A 1 HETATM 3 O O2 CIT . . . D 3 -43.209 -41.511 -6.987 1 0 ? O2 CIT 333 A 1 HETATM 4 C C2 CIT . . . D 3 -43.964 -40.147 -8.929 1 0 ? C2 CIT 333 A 1 HETATM 5 C C3 CIT . . . D 3 -44.724 -41.44 -9.36 1 0 ? C3 CIT 333 A 1 HETATM 6 O O7 CIT . . . D 3 -43.928 -42.363 -9.362 1 0 ? O7 CIT 333 A 1 HETATM 7 C C4 CIT . . . D 3 -45.55 -41.017 -10.841 1 0 ? C4 CIT 333 A 1 HETATM 8 C C5 CIT . . . D 3 -46.81 -40.114 -10.442 1 0 ? C5 CIT 333 A 1 HETATM 9 O O3 CIT . . . D 3 -46.67 -39.271 -9.557 1 0 ? O3 CIT 333 A 1 HETATM 10 O O4 CIT . . . D 3 -47.875 -40.248 -10.965 1 0 ? O4 CIT 333 A 1 HETATM 11 C C6 CIT . . . D 3 -45.774 -41.872 -8.259 1 0 ? C6 CIT 333 A 1 HETATM 12 O O5 CIT . . . D 3 -46.826 -42.534 -8.655 1 0 ? O5 CIT 333 A 1 HETATM 13 O O6 CIT . . . D 3 -45.67 -41.529 -7.164 1 0 ? O6 CIT 333 A 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 13 #