data_RI2 # _chem_comp.id RI2 _chem_comp.name "1,5-di-O-phosphono-alpha-D-ribofuranose" _chem_comp.type "D-saccharide, alpha linking" _chem_comp.pdbx_type ATOMS _chem_comp.formula "C5 H12 O11 P2" _chem_comp.mon_nstd_parent_comp_id RIB _chem_comp.pdbx_synonyms "1,5-di-O-phosphono-alpha-D-ribose; 1,5-di-O-phosphono-D-ribose; 1,5-di-O-phosphono-ribose" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-01-07 _chem_comp.pdbx_modified_date 2020-07-17 _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 310.090 _chem_comp.one_letter_code ? _chem_comp.three_letter_code RI2 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 3Q88 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # 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 RI2 "1,5-di-O-phosphono-alpha-D-ribose" PDB ? 2 RI2 "1,5-di-O-phosphono-D-ribose" PDB ? 3 RI2 "1,5-di-O-phosphono-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.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 RI2 P P P 0 1 N N N 43.965 52.743 18.504 -3.965 -0.787 0.082 P RI2 1 RI2 C1 C1 C 0 1 N N R 44.586 57.341 16.005 1.663 0.632 -0.566 C1 RI2 2 RI2 O1 O1 O 0 1 N N N 44.227 58.638 15.633 2.646 0.095 0.321 O1 RI2 3 RI2 C2 C2 C 0 1 N N R 45.055 56.501 14.841 1.588 2.165 -0.401 C2 RI2 4 RI2 O2 O2 O 0 1 N N N 44.321 56.855 13.657 2.083 2.564 0.878 O2 RI2 5 RI2 C3 C3 C 0 1 N N S 44.729 55.171 15.354 0.063 2.435 -0.512 C3 RI2 6 RI2 O3 O3 O 0 1 N N N 44.768 54.162 14.368 -0.307 3.608 0.216 O3 RI2 7 RI2 C4 C4 C 0 1 N N R 43.327 55.458 15.896 -0.511 1.160 0.155 C4 RI2 8 RI2 O4 O4 O 0 1 N N N 43.420 56.698 16.581 0.373 0.099 -0.242 O4 RI2 9 RI2 C5 C5 C 0 1 N N N 42.861 54.383 16.793 -1.929 0.887 -0.352 C5 RI2 10 RI2 O5 O5 O 0 1 N N N 43.818 54.197 17.862 -2.483 -0.222 0.358 O5 RI2 11 RI2 PA PA P 0 1 N N N 44.573 59.870 16.613 3.483 -1.242 -0.004 PA RI2 12 RI2 O1A O1A O 0 1 N N N 46.033 59.745 16.976 2.483 -2.502 -0.055 O1A RI2 13 RI2 O1P O1P O 0 1 N N N 44.482 51.826 17.351 -4.946 0.312 0.223 O1P RI2 14 RI2 O2A O2A O 0 1 N N N 44.323 61.087 15.648 4.159 -1.095 -1.312 O2A RI2 15 RI2 O2P O2P O 0 1 N N N 44.977 52.871 19.703 -4.042 -1.388 -1.410 O2P RI2 16 RI2 O3A O3A O 0 1 N N N 43.577 59.855 17.783 4.585 -1.477 1.146 O3A RI2 17 RI2 O3P O3P O 0 1 N N N 42.547 52.305 18.993 -4.304 -1.948 1.145 O3P RI2 18 RI2 H1 H1 H 0 1 N N N 45.421 57.419 16.717 1.918 0.383 -1.596 H1 RI2 19 RI2 H2 H2 H 0 1 N N N 46.108 56.609 14.541 2.130 2.668 -1.202 H2 RI2 20 RI2 HO2 HO2 H 0 1 N Y N 44.620 56.324 12.928 3.011 2.336 1.030 HO2 RI2 21 RI2 H3 H3 H 0 1 N N N 45.436 54.765 16.093 -0.249 2.508 -1.554 H3 RI2 22 RI2 HO3 HO3 H 0 1 N Y N 44.548 53.326 14.761 0.116 4.418 -0.101 HO3 RI2 23 RI2 H4 H4 H 0 1 N N N 42.590 55.505 15.081 -0.510 1.267 1.239 H4 RI2 24 RI2 H51 H5 H 0 1 N N N 41.885 54.658 17.219 -2.548 1.769 -0.190 H51 RI2 25 RI2 H52 H5A H 0 1 N N N 42.762 53.447 16.223 -1.896 0.657 -1.417 H52 RI2 26 RI2 HO1A HO1A H 0 0 N N N 46.527 60.434 16.547 2.005 -2.659 0.771 HO1A RI2 27 RI2 HO2P HO2P H 0 0 N N N 45.753 52.355 19.519 -3.424 -2.114 -1.574 HO2P RI2 28 RI2 HO3A HO3A H 0 0 N N N 42.986 60.595 17.706 5.128 -2.267 1.015 HO3A RI2 29 RI2 HO3P HO3P H 0 0 N N N 42.257 51.552 18.492 -5.183 -2.335 1.038 HO3P RI2 30 # # 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 RI2 O1P P DOUB N N 1 RI2 O5 P SING N N 2 RI2 P O3P SING N N 3 RI2 P O2P SING N N 4 RI2 C2 C1 SING N N 5 RI2 O1 C1 SING N N 6 RI2 C1 O4 SING N N 7 RI2 C1 H1 SING N N 8 RI2 O1 PA SING N N 9 RI2 O2 C2 SING N N 10 RI2 C2 C3 SING N N 11 RI2 C2 H2 SING N N 12 RI2 O2 HO2 SING N N 13 RI2 O3 C3 SING N N 14 RI2 C3 C4 SING N N 15 RI2 C3 H3 SING N N 16 RI2 O3 HO3 SING N N 17 RI2 C4 O4 SING N N 18 RI2 C4 C5 SING N N 19 RI2 C4 H4 SING N N 20 RI2 C5 O5 SING N N 21 RI2 C5 H51 SING N N 22 RI2 C5 H52 SING N N 23 RI2 O2A PA DOUB N N 24 RI2 PA O1A SING N N 25 RI2 PA O3A SING N N 26 RI2 O1A HO1A SING N N 27 RI2 O2P HO2P SING N N 28 RI2 O3A HO3A SING N N 29 RI2 O3P HO3P SING N N 30 # # 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 RI2 SMILES ACDLabs 12.01 "O=P(O)(O)OCC1OC(OP(=O)(O)O)C(O)C1O" RI2 SMILES_CANONICAL CACTVS 3.370 "O[C@H]1[C@@H](O)[C@H](O[C@@H]1CO[P](O)(O)=O)O[P](O)(O)=O" RI2 SMILES CACTVS 3.370 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)O[P](O)(O)=O" RI2 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "C([C@@H]1[C@H]([C@H]([C@H](O1)OP(=O)(O)O)O)O)OP(=O)(O)O" RI2 SMILES "OpenEye OEToolkits" 1.7.0 "C(C1C(C(C(O1)OP(=O)(O)O)O)O)OP(=O)(O)O" RI2 InChI InChI 1.03 "InChI=1S/C5H12O11P2/c6-3-2(1-14-17(8,9)10)15-5(4(3)7)16-18(11,12)13/h2-7H,1H2,(H2,8,9,10)(H2,11,12,13)/t2-,3-,4-,5-/m1/s1" RI2 InChIKey InChI 1.03 AAAFZMYJJHWUPN-TXICZTDVSA-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 RI2 "SYSTEMATIC NAME" ACDLabs 12.01 "1,5-di-O-phosphono-alpha-D-ribofuranose" RI2 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl] dihydrogen phosphate" RI2 "IUPAC CARBOHYDRATE SYMBOL" PDB-CARE 1.0 a-D-Ribf1PO35PO3 # _pdbx_chem_comp_related.comp_id RI2 _pdbx_chem_comp_related.related_comp_id RIB _pdbx_chem_comp_related.relationship_type "Carbohydrate core" _pdbx_chem_comp_related.details ? # # loop_ _pdbx_chem_comp_atom_related.ordinal _pdbx_chem_comp_atom_related.comp_id _pdbx_chem_comp_atom_related.atom_id _pdbx_chem_comp_atom_related.related_comp_id _pdbx_chem_comp_atom_related.related_atom_id _pdbx_chem_comp_atom_related.related_type 1 RI2 C1 RIB C1 "Carbohydrate core" 2 RI2 C2 RIB C2 "Carbohydrate core" 3 RI2 C3 RIB C3 "Carbohydrate core" 4 RI2 C4 RIB C4 "Carbohydrate core" 5 RI2 C5 RIB C5 "Carbohydrate core" 6 RI2 O1 RIB O1 "Carbohydrate core" 7 RI2 O2 RIB O2 "Carbohydrate core" 8 RI2 O3 RIB O3 "Carbohydrate core" 9 RI2 O4 RIB O4 "Carbohydrate core" 10 RI2 O5 RIB O5 "Carbohydrate core" 11 RI2 H1 RIB H1 "Carbohydrate core" 12 RI2 H2 RIB H2 "Carbohydrate core" 13 RI2 H3 RIB H3 "Carbohydrate core" 14 RI2 H4 RIB H4 "Carbohydrate core" 15 RI2 H51 RIB H51 "Carbohydrate core" 16 RI2 H52 RIB H52 "Carbohydrate core" 17 RI2 HO2 RIB HO2 "Carbohydrate core" 18 RI2 HO3 RIB HO3 "Carbohydrate core" # # 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 RI2 "CARBOHYDRATE ISOMER" D PDB ? RI2 "CARBOHYDRATE RING" furanose PDB ? RI2 "CARBOHYDRATE ANOMER" alpha PDB ? RI2 "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 RI2 "Create component" 2011-01-07 RCSB RI2 "Modify descriptor" 2011-06-04 RCSB RI2 "Other modification" 2020-07-03 RCSB RI2 "Modify parent residue" 2020-07-17 RCSB RI2 "Modify synonyms" 2020-07-17 RCSB RI2 "Modify internal type" 2020-07-17 RCSB RI2 "Modify linking type" 2020-07-17 RCSB RI2 "Modify atom id" 2020-07-17 RCSB RI2 "Modify component atom id" 2020-07-17 RCSB RI2 "Modify leaving atom flag" 2020-07-17 RCSB ##