data_RIB # _chem_comp.id RIB _chem_comp.name alpha-D-ribofuranose _chem_comp.type "D-saccharide, alpha linking" _chem_comp.pdbx_type ATOMS _chem_comp.formula "C5 H10 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "alpha-D-ribose; D-ribose; ribose" _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 RIB _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 1RKD _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 RIB alpha-D-ribose PDB ? 2 RIB D-ribose PDB ? 3 RIB ribose 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 RIB O5 "O5'" O 0 1 N N N N N N -22.638 14.721 43.822 -0.774 -0.372 3.102 O5 RIB 1 RIB C5 "C5'" C 0 1 N N N N N N -21.843 14.285 44.944 0.124 0.364 2.271 C5 RIB 2 RIB C4 "C4'" C 0 1 N N R N N N -20.428 14.057 44.341 0.184 -0.281 0.885 C4 RIB 3 RIB O4 "O4'" O 0 1 N N N N N N -19.948 15.274 43.768 -1.110 -0.245 0.276 O4 RIB 4 RIB C3 "C3'" C 0 1 N N S N N N -19.396 13.613 45.381 1.151 0.511 -0.020 C3 RIB 5 RIB O3 "O3'" O 0 1 N N N N N N -19.441 12.184 45.500 2.419 -0.141 -0.116 O3 RIB 6 RIB C2 "C2'" C 0 1 N N R N N N -18.089 14.222 44.874 0.412 0.487 -1.387 C2 RIB 7 RIB O2 "O2'" O 0 1 N N N N N N -17.199 13.200 44.431 0.687 -0.720 -2.100 O2 RIB 8 RIB C1 "C1'" C 0 1 N N S N N N -18.512 15.123 43.696 -1.065 0.539 -0.925 C1 RIB 9 RIB O1 "O1'" O 0 1 N Y N N N N -18.241 14.414 42.529 -1.918 -0.028 -1.921 O1 RIB 10 RIB HO5 "HO5'" H 0 1 N Y N N N N -23.502 14.860 44.190 -0.783 0.067 3.963 HO5 RIB 11 RIB H51 "H5'1" H 0 1 N N N N N N -21.862 14.979 45.815 -0.225 1.392 2.178 H51 RIB 12 RIB H52 "H5'2" H 0 1 N N N N N N -22.258 13.401 45.483 1.119 0.359 2.718 H52 RIB 13 RIB H4 "H4'" H 0 1 N N N N N N -20.542 13.248 43.581 0.523 -1.313 0.973 H4 RIB 14 RIB H3 "H3'" H 0 1 N N N N N N -19.564 13.959 46.427 1.269 1.533 0.339 H3 RIB 15 RIB HO3 "HO3'" H 0 1 N Y N N N N -18.800 11.908 46.145 2.940 0.354 -0.763 HO3 RIB 16 RIB H2 "H2'" H 0 1 N N N N N N -17.549 14.789 45.667 0.667 1.361 -1.987 H2 RIB 17 RIB HO2 "HO2'" H 0 1 N Y N N N N -16.386 13.578 44.115 0.116 -0.720 -2.880 HO2 RIB 18 RIB H1 "H1'" H 0 1 N N N N N N -17.989 16.107 43.720 -1.360 1.568 -0.717 H1 RIB 19 RIB HO1 "HO1'" H 0 1 N Y N N N N -17.297 14.314 42.481 -2.816 -0.009 -1.563 HO1 RIB 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 RIB O5 C5 SING N N 1 RIB O5 HO5 SING N N 2 RIB C5 C4 SING N N 3 RIB C5 H51 SING N N 4 RIB C5 H52 SING N N 5 RIB C4 O4 SING N N 6 RIB C4 C3 SING N N 7 RIB C4 H4 SING N N 8 RIB O4 C1 SING N N 9 RIB C3 O3 SING N N 10 RIB C3 C2 SING N N 11 RIB C3 H3 SING N N 12 RIB O3 HO3 SING N N 13 RIB C2 O2 SING N N 14 RIB C2 C1 SING N N 15 RIB C2 H2 SING N N 16 RIB O2 HO2 SING N N 17 RIB C1 O1 SING N N 18 RIB C1 H1 SING N N 19 RIB O1 HO1 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 RIB SMILES ACDLabs 10.04 "OC1C(OC(O)C1O)CO" RIB SMILES_CANONICAL CACTVS 3.341 "OC[C@H]1O[C@H](O)[C@H](O)[C@@H]1O" RIB SMILES CACTVS 3.341 "OC[CH]1O[CH](O)[CH](O)[CH]1O" RIB SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C([C@@H]1[C@H]([C@H]([C@H](O1)O)O)O)O" RIB SMILES "OpenEye OEToolkits" 1.5.0 "C(C1C(C(C(O1)O)O)O)O" RIB InChI InChI 1.03 "InChI=1S/C5H10O5/c6-1-2-3(7)4(8)5(9)10-2/h2-9H,1H2/t2-,3-,4-,5+/m1/s1" RIB InChIKey InChI 1.03 HMFHBZSHGGEWLO-AIHAYLRMSA-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 RIB "SYSTEMATIC NAME" ACDLabs 10.04 alpha-D-ribofuranose RIB "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S,3R,4S,5R)-5-(hydroxymethyl)oxolane-2,3,4-triol" RIB "CONDENSED IUPAC CARBOHYDRATE SYMBOL" GMML 1.0 DRibfa RIB "COMMON NAME" GMML 1.0 a-D-ribofuranose RIB "IUPAC CARBOHYDRATE SYMBOL" PDB-CARE 1.0 a-D-Ribf RIB "SNFG CARBOHYDRATE SYMBOL" GMML 1.0 Rib # 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 RIB "CARBOHYDRATE ISOMER" D PDB ? RIB "CARBOHYDRATE RING" furanose PDB ? RIB "CARBOHYDRATE ANOMER" alpha PDB ? RIB "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 RIB "Create component" 1999-07-08 RCSB RIB "Modify descriptor" 2011-06-04 RCSB RIB "Other modification" 2019-08-12 RCSB RIB "Other modification" 2019-12-19 RCSB RIB "Other modification" 2020-07-03 RCSB RIB "Modify name" 2020-07-17 RCSB RIB "Modify synonyms" 2020-07-17 RCSB RIB "Modify atom id" 2020-07-17 RCSB RIB "Modify component atom id" 2020-07-17 RCSB RIB "Modify PCM" 2024-09-27 PDBE # loop_ _pdbx_chem_comp_pcm.pcm_id _pdbx_chem_comp_pcm.comp_id _pdbx_chem_comp_pcm.modified_residue_id _pdbx_chem_comp_pcm.type _pdbx_chem_comp_pcm.category _pdbx_chem_comp_pcm.position _pdbx_chem_comp_pcm.polypeptide_position _pdbx_chem_comp_pcm.comp_id_linking_atom _pdbx_chem_comp_pcm.modified_residue_id_linking_atom _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession 1 RIB ARG None Carbohydrate "Amino-acid side chain" "Any position" C1 NH1 ? ? 2 RIB GLU None Carbohydrate "Amino-acid side chain" "Any position" C1 OE2 ? ? 3 RIB SER None Carbohydrate "Amino-acid side chain" "Any position" C1 OG ? ? #