data_2XB9 # _model_server_result.job_id lJA0Nmb8MAp1WEGghHRs4w _model_server_result.datetime_utc '2025-07-02 00:21:52' _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 2xb9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 2XB9 # _exptl.entry_id 2XB9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 310.299 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1R,2R,4S,5R)-1,4,5-TRIHYDROXY-2-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC 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 2XB9 _cell.length_a 100.56 _cell.length_b 100.56 _cell.length_c 105.449 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XB9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 93 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 42 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 6_565 x,-y+1,-z 1 0 0 0 -1 0 0 0 -1 0 100.56 0 3 'crystal symmetry operation' 2_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 100.56 0 4 'crystal symmetry operation' 5_555 -x,y,-z -1 0 0 0 1 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 ? 2 D N N ? 2 E N N # _chem_comp.formula 'C15 H18 O7' _chem_comp.formula_weight 310.299 _chem_comp.id XNW _chem_comp.mon_nstd_flag . _chem_comp.name '(1R,2R,4S,5R)-1,4,5-TRIHYDROXY-2-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(2R)-2-METHOXYBENZYL-3-DEHYDROQUINIC ACID' # 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 CAA OAN XNW sing 368 n n OAN CAR XNW sing 369 n n CAR CAK XNW sing 370 n y CAR CAJ XNW doub 371 n y CAK CAI XNW doub 372 n y CAI CAQ XNW sing 373 n y CAJ CAH XNW sing 374 n y CAH CAQ XNW doub 375 n y CAQ CAL XNW sing 376 n n CAL CAU XNW sing 377 n n CAU CAP XNW sing 378 n n CAU CAV XNW sing 379 n n CAP OAC XNW doub 380 n n CAP CAT XNW sing 381 n n CAT OAF XNW sing 382 n n CAT CAS XNW sing 383 n n CAS OAE XNW sing 384 n n CAS CAM XNW sing 385 n n CAM CAV XNW sing 386 n n CAV CAO XNW sing 387 n n CAV OAG XNW sing 388 n n CAO OAD XNW sing 389 n n CAO OAB XNW doub 390 n n CAA HAA1 XNW sing 391 n n CAA HAA2 XNW sing 392 n n CAA HAA3 XNW sing 393 n n CAK HAK XNW sing 394 n n CAJ HAJ XNW sing 395 n n CAI HAI XNW sing 396 n n CAH HAH XNW sing 397 n n CAL HAL1 XNW sing 398 n n CAL HAL2 XNW sing 399 n n CAU HAU XNW sing 400 n n CAT HAT XNW sing 401 n n OAF HAF XNW sing 402 n n CAS HAS XNW sing 403 n n OAE HAE XNW sing 404 n n CAM HAM1 XNW sing 405 n n CAM HAM2 XNW sing 406 n n OAG HAG XNW sing 407 n n OAD HAD XNW sing 408 n n # _atom_sites.entry_id 2XB9 _atom_sites.fract_transf_matrix[1][1] 0.009944 _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] 0.009944 _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] 0.009483 _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 D 2 XNW A 1 201 201 XNW XNW . E 2 XNW B 1 201 201 XNW XNW . F 3 CIT C 1 201 201 CIT CIT . G 4 HOH A 1 2001 2001 HOH HOH . G 4 HOH A 2 2002 2002 HOH HOH . G 4 HOH A 3 2003 2003 HOH HOH . G 4 HOH A 4 2004 2004 HOH HOH . G 4 HOH A 5 2005 2005 HOH HOH . G 4 HOH A 6 2006 2006 HOH HOH . G 4 HOH A 7 2007 2007 HOH HOH . G 4 HOH A 8 2008 2008 HOH HOH . G 4 HOH A 9 2009 2009 HOH HOH . G 4 HOH A 10 2010 2010 HOH HOH . H 4 HOH B 1 2001 2001 HOH HOH . H 4 HOH B 2 2002 2002 HOH HOH . H 4 HOH B 3 2003 2003 HOH HOH . H 4 HOH B 4 2004 2004 HOH HOH . I 4 HOH C 1 2001 2001 HOH HOH . I 4 HOH C 2 2002 2002 HOH HOH . I 4 HOH C 3 2003 2003 HOH HOH . I 4 HOH C 4 2004 2004 HOH HOH . I 4 HOH C 5 2005 2005 HOH HOH . I 4 HOH C 6 2006 2006 HOH HOH . I 4 HOH C 7 2007 2007 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 CAA XNW . . . D 2 -25.784 50.972 20.091 1 46.03 ? CAA XNW 201 A 1 HETATM 2 O OAN XNW . . . D 2 -25.344 49.659 19.732 1 47.4 ? OAN XNW 201 A 1 HETATM 3 C CAR XNW . . . D 2 -25.332 49.355 18.384 1 47.03 ? CAR XNW 201 A 1 HETATM 4 C CAK XNW . . . D 2 -24.55 48.312 17.912 1 46 ? CAK XNW 201 A 1 HETATM 5 C CAI XNW . . . D 2 -24.536 47.963 16.556 1 45.7 ? CAI XNW 201 A 1 HETATM 6 C CAJ XNW . . . D 2 -26.087 50.056 17.445 1 47.47 ? CAJ XNW 201 A 1 HETATM 7 C CAH XNW . . . D 2 -26.061 49.722 16.079 1 45.84 ? CAH XNW 201 A 1 HETATM 8 C CAQ XNW . . . D 2 -25.267 48.672 15.599 1 44.52 ? CAQ XNW 201 A 1 HETATM 9 C CAL XNW . . . D 2 -25.271 48.281 14.075 1 40.55 ? CAL XNW 201 A 1 HETATM 10 C CAU XNW . . . D 2 -24.148 48.78 13.21 1 35.11 ? CAU XNW 201 A 1 HETATM 11 C CAP XNW . . . D 2 -22.94 48.057 13.694 1 38.74 ? CAP XNW 201 A 1 HETATM 12 O OAC XNW . . . D 2 -23.062 47.133 14.507 1 40 ? OAC XNW 201 A 1 HETATM 13 C CAT XNW . . . D 2 -21.605 48.416 12.986 1 38.74 ? CAT XNW 201 A 1 HETATM 14 O OAF XNW . . . D 2 -20.479 47.714 13.578 1 37.09 ? OAF XNW 201 A 1 HETATM 15 C CAS XNW . . . D 2 -21.816 48.105 11.478 1 36.18 ? CAS XNW 201 A 1 HETATM 16 O OAE XNW . . . D 2 -20.656 48.441 10.752 1 36.05 ? OAE XNW 201 A 1 HETATM 17 C CAM XNW . . . D 2 -23.035 48.863 10.914 1 33.46 ? CAM XNW 201 A 1 HETATM 18 C CAV XNW . . . D 2 -24.3 48.462 11.677 1 33.05 ? CAV XNW 201 A 1 HETATM 19 C CAO XNW . . . D 2 -25.473 49.255 11.138 1 30.99 ? CAO XNW 201 A 1 HETATM 20 O OAD XNW . . . D 2 -25.333 50.493 10.993 1 28.82 ? OAD XNW 201 A 1 HETATM 21 O OAB XNW . . . D 2 -26.509 48.605 10.941 1 28.42 ? OAB XNW 201 A 1 HETATM 22 O OAG XNW . . . D 2 -24.554 47.066 11.366 1 29.14 ? OAG XNW 201 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 22 #