data_6S3T # _model_server_result.job_id HYImL-oqHjStaiwLcVDWAA _model_server_result.datetime_utc '2024-10-19 11:49:46' _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 6s3t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":501}' # _entry.id 6S3T # _exptl.entry_id 6S3T _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.13 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description beta-D-xylopyranose _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 134.43 _cell.angle_gamma 90 _cell.entry_id 6S3T _cell.length_a 261.981 _cell.length_b 185.01 _cell.length_c 197.122 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6S3T _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? trimeric 3 author_defined_assembly 1 ? trimeric 3 author_defined_assembly 2 ? trimeric 3 author_defined_assembly 3 ? trimeric 3 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,G,H,M,N 1 1 B,I,J,O,P 2 1 C,D,K,Q,R 3 1 E,F,L,S,T 4 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 M N N ? 4 O N N ? 4 Q N N ? 4 S N N # _chem_comp.formula 'C5 H10 O5' _chem_comp.formula_weight 150.13 _chem_comp.id XYP _chem_comp.mon_nstd_flag . _chem_comp.name beta-D-xylopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms beta-D-xylose;D-xylose;xylose # 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 O1 C1 XYP sing 374 n n O1 HO1 XYP sing 375 n n C1 C2 XYP sing 376 n n C1 O5 XYP sing 377 n n C1 H1 XYP sing 378 n n C2 C3 XYP sing 379 n n C2 O2 XYP sing 380 n n C2 H2 XYP sing 381 n n C3 C4 XYP sing 382 n n C3 O3 XYP sing 383 n n C3 H3 XYP sing 384 n n C4 C5 XYP sing 385 n n C4 O4 XYP sing 386 n n C4 H4 XYP sing 387 n n C5 O5 XYP sing 388 n n C5 H51 XYP sing 389 n n C5 H52 XYP sing 390 n n O2 HO2 XYP sing 391 n n O3 HO3 XYP sing 392 n n O4 HO4 XYP sing 393 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 XYP DXylpb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 XYP b-D-xylopyranose 'COMMON NAME' GMML 1 XYP b-D-Xylp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 XYP Xyl 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 6S3T _atom_sites.fract_transf_matrix[1][1] 0.003817 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003742 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005405 _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] 0.007104 _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 M 4 XYP A 1 501 501 XYP XYP . N 5 NA A 1 502 502 NA NA . O 4 XYP B 1 501 501 XYP XYP . P 5 NA B 1 502 502 NA NA . Q 4 XYP S 1 501 501 XYP XYP . R 5 NA S 1 502 502 NA NA . S 4 XYP T 1 501 501 XYP XYP . T 5 NA T 1 502 502 NA NA . # 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 O1 XYP . . . O 4 -136.133 34.829 171.431 1 57.28 ? O1 XYP 501 B 1 HETATM 2 C C1 XYP . . . O 4 -135.157 35.672 171.016 1 65.81 ? C1 XYP 501 B 1 HETATM 3 C C2 XYP . . . O 4 -134.518 36.218 172.288 1 73.14 ? C2 XYP 501 B 1 HETATM 4 C C3 XYP . . . O 4 -133.237 36.919 171.992 1 70.33 ? C3 XYP 501 B 1 HETATM 5 C C4 XYP . . . O 4 -132.309 35.948 171.356 1 62.39 ? C4 XYP 501 B 1 HETATM 6 C C5 XYP . . . O 4 -132.857 35.517 169.994 1 62.62 ? C5 XYP 501 B 1 HETATM 7 O O2 XYP . . . O 4 -135.469 37.092 172.913 1 64.16 ? O2 XYP 501 B 1 HETATM 8 O O3 XYP . . . O 4 -132.61 37.429 173.201 1 58.23 ? O3 XYP 501 B 1 HETATM 9 O O4 XYP . . . O 4 -131.052 36.591 171.203 1 65.19 ? O4 XYP 501 B 1 HETATM 10 O O5 XYP . . . O 4 -134.205 34.912 170.132 1 71.28 ? O5 XYP 501 B 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 10 #