data_9GN2 # _model_server_result.job_id pQG7Fg06Z1fHVkWliU_egg _model_server_result.datetime_utc '2024-12-26 00:36:10' _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 9gn2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":202}' # _entry.id 9GN2 # _exptl.entry_id 9GN2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.13 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description alpha-D-ribofuranose _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 9GN2 _cell.length_a 148.981 _cell.length_b 148.981 _cell.length_c 148.981 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9GN2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 3' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F 1 1 A,B,C,D,E,F 1 2 A,B,C,D,E,F 1 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' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 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 # _chem_comp.formula 'C5 H10 O5' _chem_comp.formula_weight 150.13 _chem_comp.id RIB _chem_comp.mon_nstd_flag . _chem_comp.name alpha-D-ribofuranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms alpha-D-ribose;D-ribose;ribose # 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 O5 C5 RIB sing 277 n n O5 HO5 RIB sing 278 n n C5 C4 RIB sing 279 n n C5 H51 RIB sing 280 n n C5 H52 RIB sing 281 n n C4 O4 RIB sing 282 n n C4 C3 RIB sing 283 n n C4 H4 RIB sing 284 n n O4 C1 RIB sing 285 n n C3 O3 RIB sing 286 n n C3 C2 RIB sing 287 n n C3 H3 RIB sing 288 n n O3 HO3 RIB sing 289 n n C2 O2 RIB sing 290 n n C2 C1 RIB sing 291 n n C2 H2 RIB sing 292 n n O2 HO2 RIB sing 293 n n C1 O1 RIB sing 294 n n C1 H1 RIB sing 295 n n O1 HO1 RIB sing 296 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version RIB DRibfa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 RIB a-D-ribofuranose 'COMMON NAME' GMML 1 RIB a-D-Ribf 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 RIB Rib 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 9GN2 _atom_sites.fract_transf_matrix[1][1] 0.006712 _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] 0.006712 _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] 0.006712 _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 CYT A 1 201 201 CYT CYT . D 3 RIB A 1 202 202 RIB RIB . E 4 HOH A 1 301 23 HOH HOH . E 4 HOH A 2 302 98 HOH HOH . E 4 HOH A 3 303 106 HOH HOH . E 4 HOH A 4 304 113 HOH HOH . E 4 HOH A 5 305 120 HOH HOH . E 4 HOH A 6 306 121 HOH HOH . E 4 HOH A 7 307 14 HOH HOH . E 4 HOH A 8 308 84 HOH HOH . E 4 HOH A 9 309 80 HOH HOH . E 4 HOH A 10 310 3 HOH HOH . E 4 HOH A 11 311 79 HOH HOH . E 4 HOH A 12 312 91 HOH HOH . E 4 HOH A 13 313 87 HOH HOH . E 4 HOH A 14 314 10 HOH HOH . E 4 HOH A 15 315 76 HOH HOH . E 4 HOH A 16 316 100 HOH HOH . E 4 HOH A 17 317 78 HOH HOH . E 4 HOH A 18 318 81 HOH HOH . E 4 HOH A 19 319 94 HOH HOH . E 4 HOH A 20 320 124 HOH HOH . E 4 HOH A 21 321 101 HOH HOH . E 4 HOH A 22 322 105 HOH HOH . E 4 HOH A 23 323 90 HOH HOH . E 4 HOH A 24 324 83 HOH HOH . E 4 HOH A 25 325 111 HOH HOH . E 4 HOH A 26 326 125 HOH HOH . E 4 HOH A 27 327 88 HOH HOH . E 4 HOH A 28 328 119 HOH HOH . E 4 HOH A 29 329 103 HOH HOH . E 4 HOH A 30 330 116 HOH HOH . E 4 HOH A 31 331 6 HOH HOH . E 4 HOH A 32 332 115 HOH HOH . E 4 HOH A 33 333 112 HOH HOH . E 4 HOH A 34 334 97 HOH HOH . E 4 HOH A 35 335 122 HOH HOH . F 4 HOH B 1 201 108 HOH HOH . F 4 HOH B 2 202 95 HOH HOH . F 4 HOH B 3 203 109 HOH HOH . F 4 HOH B 4 204 77 HOH HOH . F 4 HOH B 5 205 85 HOH HOH . F 4 HOH B 6 206 52 HOH HOH . F 4 HOH B 7 207 96 HOH HOH . F 4 HOH B 8 208 86 HOH HOH . F 4 HOH B 9 209 102 HOH HOH . F 4 HOH B 10 210 11 HOH HOH . F 4 HOH B 11 211 1 HOH HOH . F 4 HOH B 12 212 82 HOH HOH . F 4 HOH B 13 213 19 HOH HOH . F 4 HOH B 14 214 22 HOH HOH . F 4 HOH B 15 215 13 HOH HOH . F 4 HOH B 16 216 117 HOH HOH . F 4 HOH B 17 217 104 HOH HOH . F 4 HOH B 18 218 93 HOH HOH . F 4 HOH B 19 219 17 HOH HOH . F 4 HOH B 20 220 34 HOH HOH . F 4 HOH B 21 221 49 HOH HOH . F 4 HOH B 22 222 123 HOH HOH . F 4 HOH B 23 223 92 HOH HOH . F 4 HOH B 24 224 107 HOH HOH . F 4 HOH B 25 225 89 HOH HOH . F 4 HOH B 26 226 118 HOH HOH . F 4 HOH B 27 227 110 HOH HOH . F 4 HOH B 28 228 99 HOH HOH . F 4 HOH B 29 229 114 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 O O5 RIB . . . D 3 19.286 15.298 45.654 1 83.58 ? O5 RIB 202 A 1 HETATM 2 C C5 RIB . . . D 3 19.039 14.397 44.581 1 94.4 ? C5 RIB 202 A 1 HETATM 3 C C4 RIB . . . D 3 19.199 15.048 43.22 1 100.99 ? C4 RIB 202 A 1 HETATM 4 O O4 RIB . . . D 3 20.452 14.697 42.572 1 92.92 ? O4 RIB 202 A 1 HETATM 5 C C3 RIB . . . D 3 18.099 14.627 42.232 1 99.96 ? C3 RIB 202 A 1 HETATM 6 O O3 RIB . . . D 3 17.302 15.711 41.769 1 93.38 ? O3 RIB 202 A 1 HETATM 7 C C2 RIB . . . D 3 18.881 14.097 41.043 1 91.54 ? C2 RIB 202 A 1 HETATM 8 O O2 RIB . . . D 3 18.042 14.505 39.987 1 119.43 ? O2 RIB 202 A 1 HETATM 9 C C1 RIB . . . D 3 20.238 14.806 41.162 1 113.39 ? C1 RIB 202 A 1 # _model_server_stats.io_time_ms 76 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 597 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 9 #