data_1KYC # _model_server_result.job_id kiYsenGHSQygjGZjDAxkBQ _model_server_result.datetime_utc '2025-03-05 04:22:55' _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 1kyc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":0}' # _entry.id 1KYC # _exptl.entry_id 1KYC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.088 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SUCCINIC 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 120 _cell.entry_id 1KYC _cell.length_a 33.386 _cell.length_b 33.386 _cell.length_c 65.691 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KYC _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_765 -y+2,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 50.079 28.913124 0 3 'crystal symmetry operation' 3_675 -x+y+1,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 57.826248 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _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 D C1 SIN . A SIN 0 1_555 A N GLU 1 A GLU 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C ARG 15 A ARG 15 1_555 A N NH2 16 A NH2 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.254 ? # _chem_comp.formula 'C4 H6 O4' _chem_comp.formula_weight 118.088 _chem_comp.id SIN _chem_comp.mon_nstd_flag . _chem_comp.name 'SUCCINIC 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 SIN doub 91 n n C1 O2 SIN sing 92 n n C1 C2 SIN sing 93 n n O2 HO2 SIN sing 94 n n C2 C3 SIN sing 95 n n C2 H21 SIN sing 96 n n C2 H22 SIN sing 97 n n C3 C4 SIN sing 98 n n C3 H31 SIN sing 99 n n C3 H32 SIN sing 100 n n C4 O3 SIN doub 101 n n C4 O4 SIN sing 102 n n O4 HO4 SIN sing 103 n n # _atom_sites.entry_id 1KYC _atom_sites.fract_transf_matrix[1][1] 0.029953 _atom_sites.fract_transf_matrix[1][2] 0.017293 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.034586 _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] 0.015223 _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 B 2 SO4 A 1 101 101 SO4 SO4 . C 2 SO4 A 1 102 102 SO4 SO4 . D 3 SIN A 1 0 0 SIN SIN . E 4 HOH A 1 103 1 HOH HOH . E 4 HOH A 2 104 2 HOH HOH . E 4 HOH A 3 105 3 HOH HOH . E 4 HOH A 4 106 4 HOH HOH . E 4 HOH A 5 107 5 HOH HOH . E 4 HOH A 6 108 6 HOH HOH . E 4 HOH A 7 109 7 HOH HOH . E 4 HOH A 8 110 8 HOH HOH . E 4 HOH A 9 111 9 HOH HOH . E 4 HOH A 10 112 10 HOH HOH . E 4 HOH A 11 113 11 HOH HOH . E 4 HOH A 12 114 12 HOH HOH . E 4 HOH A 13 115 13 HOH HOH . E 4 HOH A 14 116 14 HOH HOH . E 4 HOH A 15 117 15 HOH HOH . E 4 HOH A 16 118 16 HOH HOH . E 4 HOH A 17 119 17 HOH HOH . E 4 HOH A 18 120 18 HOH HOH . E 4 HOH A 19 121 19 HOH HOH . E 4 HOH A 20 122 20 HOH HOH . E 4 HOH A 21 123 21 HOH HOH . E 4 HOH A 22 124 22 HOH HOH . E 4 HOH A 23 125 24 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 SIN . . . D 3 11.143 26.02 2.776 1 19.39 ? C1 SIN 0 A 1 HETATM 2 O O1 SIN . . . D 3 11.536 26.296 3.914 1 19.91 ? O1 SIN 0 A 1 HETATM 3 C C2 SIN . . . D 3 11.845 26.557 1.542 1 21.62 ? C2 SIN 0 A 1 HETATM 4 C C3 SIN . . . D 3 12.465 27.926 1.781 1 22.69 ? C3 SIN 0 A 1 HETATM 5 C C4 SIN . . . D 3 11.485 29.081 1.82 1 23.91 ? C4 SIN 0 A 1 HETATM 6 O O3 SIN . . . D 3 11.966 30.23 1.941 1 24.14 ? O3 SIN 0 A 1 HETATM 7 O O4 SIN . . . D 3 10.281 28.844 2.062 1 25.37 ? O4 SIN 0 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 7 #