data_8RKP # _model_server_result.job_id YO0-eD8pDi-bR6yaRSIWhg _model_server_result.datetime_utc '2025-01-10 15:35:03' _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 8rkp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 8RKP # _exptl.entry_id 8RKP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 176.124 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ASCORBIC ACID' _entity.pdbx_number_of_molecules 3 _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 8RKP _cell.length_a 83.671 _cell.length_b 83.671 _cell.length_c 88.247 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RKP _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 2' # _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 _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_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 -41.8355 72.461212 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N ? 3 E 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 SG CYS 123 A CYS 124 1_555 F CAB HEC . A HEC 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.806 ? covale ? covale2 A SG CYS 126 A CYS 127 1_555 F CAC HEC . A HEC 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.767 ? metalc ? metalc1 B N NO . A NO 201 1_555 F FE HEC . A HEC 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.909 ? metalc ? metalc2 B O NO . A NO 201 1_555 F FE HEC . A HEC 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.725 ? # _chem_comp.formula 'C6 H8 O6' _chem_comp.formula_weight 176.124 _chem_comp.id ASC _chem_comp.mon_nstd_flag . _chem_comp.name 'ASCORBIC ACID' _chem_comp.type l-saccharide _chem_comp.pdbx_synonyms 'Vitamin C' # 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 C2 ASC sing 39 n n C1 O1 ASC doub 40 n n C1 O4 ASC sing 41 n n C2 C3 ASC doub 42 n n C2 O2 ASC sing 43 n n C3 C4 ASC sing 44 n n C3 O3 ASC sing 45 n n C4 C5 ASC sing 46 n n C4 O4 ASC sing 47 n n C4 H4 ASC sing 48 n n C5 C6 ASC sing 49 n n C5 O5 ASC sing 50 n n C5 H5 ASC sing 51 n n C6 O6 ASC sing 52 n n C6 H61 ASC sing 53 n n C6 H62 ASC sing 54 n n O2 HO2 ASC sing 55 n n O3 HO3 ASC sing 56 n n O5 HO5 ASC sing 57 n n O6 HO6 ASC sing 58 n n # _atom_sites.entry_id 8RKP _atom_sites.fract_transf_matrix[1][1] 0.011952 _atom_sites.fract_transf_matrix[1][2] 0.0069 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0138 _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] 0.011332 _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 NO A 1 201 202 NO NO . C 3 ASC A 1 202 203 ASC ASC . D 3 ASC A 1 203 205 ASC ASC . E 3 ASC A 1 204 206 ASC ASC . F 4 HEC A 1 205 207 HEC HEC . G 5 HOH A 1 301 59 HOH HOH . G 5 HOH A 2 302 62 HOH HOH . G 5 HOH A 3 303 31 HOH HOH . G 5 HOH A 4 304 75 HOH HOH . G 5 HOH A 5 305 6 HOH HOH . G 5 HOH A 6 306 30 HOH HOH . G 5 HOH A 7 307 20 HOH HOH . G 5 HOH A 8 308 43 HOH HOH . G 5 HOH A 9 309 35 HOH HOH . G 5 HOH A 10 310 71 HOH HOH . G 5 HOH A 11 311 36 HOH HOH . G 5 HOH A 12 312 17 HOH HOH . G 5 HOH A 13 313 23 HOH HOH . G 5 HOH A 14 314 1 HOH HOH . G 5 HOH A 15 315 4 HOH HOH . G 5 HOH A 16 316 3 HOH HOH . G 5 HOH A 17 317 47 HOH HOH . G 5 HOH A 18 318 21 HOH HOH . G 5 HOH A 19 319 12 HOH HOH . G 5 HOH A 20 320 66 HOH HOH . G 5 HOH A 21 321 46 HOH HOH . G 5 HOH A 22 322 29 HOH HOH . G 5 HOH A 23 323 14 HOH HOH . G 5 HOH A 24 324 9 HOH HOH . G 5 HOH A 25 325 33 HOH HOH . G 5 HOH A 26 326 55 HOH HOH . G 5 HOH A 27 327 5 HOH HOH . G 5 HOH A 28 328 7 HOH HOH . G 5 HOH A 29 329 8 HOH HOH . G 5 HOH A 30 330 15 HOH HOH . G 5 HOH A 31 331 61 HOH HOH . G 5 HOH A 32 332 24 HOH HOH . G 5 HOH A 33 333 13 HOH HOH . G 5 HOH A 34 334 10 HOH HOH . G 5 HOH A 35 335 39 HOH HOH . G 5 HOH A 36 336 54 HOH HOH . G 5 HOH A 37 337 52 HOH HOH . G 5 HOH A 38 338 48 HOH HOH . G 5 HOH A 39 339 26 HOH HOH . G 5 HOH A 40 340 19 HOH HOH . G 5 HOH A 41 341 58 HOH HOH . G 5 HOH A 42 342 40 HOH HOH . G 5 HOH A 43 343 2 HOH HOH . G 5 HOH A 44 344 27 HOH HOH . G 5 HOH A 45 345 60 HOH HOH . G 5 HOH A 46 346 44 HOH HOH . G 5 HOH A 47 347 11 HOH HOH . G 5 HOH A 48 348 49 HOH HOH . G 5 HOH A 49 349 18 HOH HOH . G 5 HOH A 50 350 42 HOH HOH . G 5 HOH A 51 351 22 HOH HOH . G 5 HOH A 52 352 32 HOH HOH . G 5 HOH A 53 353 68 HOH HOH . G 5 HOH A 54 354 53 HOH HOH . G 5 HOH A 55 355 67 HOH HOH . G 5 HOH A 56 356 25 HOH HOH . G 5 HOH A 57 357 65 HOH HOH . G 5 HOH A 58 358 50 HOH HOH . G 5 HOH A 59 359 51 HOH HOH . G 5 HOH A 60 360 41 HOH HOH . G 5 HOH A 61 361 64 HOH HOH . G 5 HOH A 62 362 72 HOH HOH . G 5 HOH A 63 363 63 HOH HOH . G 5 HOH A 64 364 38 HOH HOH . G 5 HOH A 65 365 56 HOH HOH . G 5 HOH A 66 366 57 HOH HOH . G 5 HOH A 67 367 28 HOH HOH . G 5 HOH A 68 368 73 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 ASC . . . D 3 -33.887 35.759 0.821 1 73.59 ? C1 ASC 203 A 1 HETATM 2 C C2 ASC . . . D 3 -35.208 36.216 0.516 1 80.42 ? C2 ASC 203 A 1 HETATM 3 C C3 ASC . . . D 3 -35.579 35.591 -0.633 1 86.68 ? C3 ASC 203 A 1 HETATM 4 C C4 ASC . . . D 3 -34.37 34.986 -1.268 1 83.33 ? C4 ASC 203 A 1 HETATM 5 C C5 ASC . . . D 3 -33.98 35.803 -2.492 1 83.37 ? C5 ASC 203 A 1 HETATM 6 C C6 ASC . . . D 3 -32.918 36.839 -2.184 1 81.15 ? C6 ASC 203 A 1 HETATM 7 O O1 ASC . . . D 3 -33.247 35.888 1.842 1 73.53 ? O1 ASC 203 A 1 HETATM 8 O O2 ASC . . . D 3 -35.823 37.118 1.329 1 95.48 ? O2 ASC 203 A 1 HETATM 9 O O3 ASC . . . D 3 -36.773 35.496 -1.201 1 95.87 ? O3 ASC 203 A 1 HETATM 10 O O4 ASC . . . D 3 -33.36 35.102 -0.247 1 75.53 ? O4 ASC 203 A 1 HETATM 11 O O5 ASC . . . D 3 -35.13 36.452 -3.024 1 102.89 ? O5 ASC 203 A 1 HETATM 12 O O6 ASC . . . D 3 -33.372 38.158 -2.46 1 74.82 ? O6 ASC 203 A 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 12 #