data_XYP # _chem_comp.id XYP _chem_comp.name beta-D-xylopyranose _chem_comp.type "D-saccharide, beta linking" _chem_comp.pdbx_type ATOMS _chem_comp.formula "C5 H10 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "beta-D-xylose; D-xylose; xylose" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2024-09-27 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 150.130 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XYP _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1QH7 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 XYP beta-D-xylose PDB ? 2 XYP D-xylose PDB ? 3 XYP xylose PDB ? # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal XYP O1 O4A O 0 1 N Y N N N N 25.473 67.456 19.833 0.501 -0.130 -2.746 O1 XYP 1 XYP C1 C1B C 0 1 N N R N N N 26.238 67.853 20.951 0.509 0.253 -1.370 C1 XYP 2 XYP C2 C2B C 0 1 N N R N N N 27.692 68.019 20.449 -0.780 -0.228 -0.701 C2 XYP 3 XYP C3 C3B C 0 1 N N S N N N 28.484 68.399 21.697 -0.779 0.213 0.766 C3 XYP 4 XYP C4 C4B C 0 1 N N R N N N 28.013 69.789 22.196 0.519 -0.269 1.423 C4 XYP 5 XYP C5 C5B C 0 1 N N N N N N 26.475 69.804 22.292 1.710 0.215 0.593 C5 XYP 6 XYP O2 O2B O 0 1 N N N N N N 28.167 66.806 19.914 -1.907 0.337 -1.372 O2 XYP 7 XYP O3 O3B O 0 1 N N N N N N 29.848 68.362 21.410 -1.904 -0.354 1.439 O3 XYP 8 XYP O4 O4B O 0 1 N N N N N N 28.532 69.789 23.537 0.611 0.260 2.747 O4 XYP 9 XYP O5 O5B O 0 1 N N N N N N 25.837 69.190 21.204 1.637 -0.331 -0.721 O5 XYP 10 XYP HO1 HO4A H 0 1 N Y N N N N 24.580 67.354 20.141 1.325 0.194 -3.132 HO1 XYP 11 XYP H1 H1B H 0 1 N N N N N N 26.132 67.149 21.809 0.571 1.338 -1.297 H1 XYP 12 XYP H2 H2B H 0 1 N N N N N N 27.780 68.782 19.640 -0.833 -1.316 -0.752 H2 XYP 13 XYP H3 H3B H 0 1 N N N N N N 28.301 67.669 22.520 -0.831 1.301 0.820 H3 XYP 14 XYP H4 H4B H 0 1 N N N N N N 28.332 70.640 21.550 0.523 -1.358 1.465 H4 XYP 15 XYP H51 H5B1 H 0 1 N N N N N N 26.136 69.352 23.253 1.692 1.303 0.535 H51 XYP 16 XYP H52 H5B2 H 0 1 N N N N N N 26.099 70.844 22.432 2.637 -0.105 1.068 H52 XYP 17 XYP HO2 HO2B H 0 1 N Y N N N N 29.059 66.907 19.605 -1.865 0.037 -2.291 HO2 XYP 18 XYP HO3 HO3B H 0 1 N Y N N N N 30.341 68.598 22.186 -1.864 -0.051 2.356 HO3 XYP 19 XYP HO4 HO4B H 0 1 N Y N N N N 28.243 70.640 23.842 1.441 -0.064 3.121 HO4 XYP 20 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal XYP O1 C1 SING N N 1 XYP O1 HO1 SING N N 2 XYP C1 C2 SING N N 3 XYP C1 O5 SING N N 4 XYP C1 H1 SING N N 5 XYP C2 C3 SING N N 6 XYP C2 O2 SING N N 7 XYP C2 H2 SING N N 8 XYP C3 C4 SING N N 9 XYP C3 O3 SING N N 10 XYP C3 H3 SING N N 11 XYP C4 C5 SING N N 12 XYP C4 O4 SING N N 13 XYP C4 H4 SING N N 14 XYP C5 O5 SING N N 15 XYP C5 H51 SING N N 16 XYP C5 H52 SING N N 17 XYP O2 HO2 SING N N 18 XYP O3 HO3 SING N N 19 XYP O4 HO4 SING N N 20 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor XYP SMILES ACDLabs 10.04 "OC1C(O)COC(O)C1O" XYP SMILES_CANONICAL CACTVS 3.341 "O[C@@H]1CO[C@@H](O)[C@H](O)[C@H]1O" XYP SMILES CACTVS 3.341 "O[CH]1CO[CH](O)[CH](O)[CH]1O" XYP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1[C@H]([C@@H]([C@H]([C@@H](O1)O)O)O)O" XYP SMILES "OpenEye OEToolkits" 1.5.0 "C1C(C(C(C(O1)O)O)O)O" XYP InChI InChI 1.03 "InChI=1S/C5H10O5/c6-2-1-10-5(9)4(8)3(2)7/h2-9H,1H2/t2-,3+,4-,5-/m1/s1" XYP InChIKey InChI 1.03 SRBFZHDQGSBBOR-KKQCNMDGSA-N # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier XYP "SYSTEMATIC NAME" ACDLabs 10.04 beta-D-xylopyranose XYP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2R,3R,4S,5R)-oxane-2,3,4,5-tetrol" XYP "CONDENSED IUPAC CARBOHYDRATE SYMBOL" GMML 1.0 DXylpb XYP "COMMON NAME" GMML 1.0 b-D-xylopyranose XYP "IUPAC CARBOHYDRATE SYMBOL" PDB-CARE 1.0 b-D-Xylp XYP "SNFG CARBOHYDRATE SYMBOL" GMML 1.0 Xyl # loop_ _pdbx_chem_comp_feature.comp_id _pdbx_chem_comp_feature.type _pdbx_chem_comp_feature.value _pdbx_chem_comp_feature.source _pdbx_chem_comp_feature.support XYP "CARBOHYDRATE ISOMER" D PDB ? XYP "CARBOHYDRATE RING" pyranose PDB ? XYP "CARBOHYDRATE ANOMER" beta PDB ? XYP "CARBOHYDRATE PRIMARY CARBONYL GROUP" aldose PDB ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XYP "Create component" 1999-07-08 RCSB XYP "Modify descriptor" 2011-06-04 RCSB XYP "Other modification" 2019-08-12 RCSB XYP "Other modification" 2019-12-19 RCSB XYP "Other modification" 2020-07-03 RCSB XYP "Modify name" 2020-07-17 RCSB XYP "Modify synonyms" 2020-07-17 RCSB XYP "Modify atom id" 2020-07-17 RCSB XYP "Modify component atom id" 2020-07-17 RCSB XYP "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id XYP _pdbx_chem_comp_pcm.modified_residue_id ASN _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category Carbohydrate _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C1 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom ND2 _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #