data_R1P # _chem_comp.id R1P _chem_comp.name 1-O-phosphono-alpha-D-ribofuranose _chem_comp.type "D-saccharide, alpha linking" _chem_comp.pdbx_type ATOMS _chem_comp.formula "C5 H11 O8 P" _chem_comp.mon_nstd_parent_comp_id RIB _chem_comp.pdbx_synonyms "RIBOSE-1-PHOSPHATE; 1-O-phosphono-alpha-D-ribose; 1-O-phosphono-D-ribose; 1-O-phosphono-ribose" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _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 RDP _chem_comp.formula_weight 230.110 _chem_comp.one_letter_code ? _chem_comp.three_letter_code R1P _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 1A9T _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 R1P RIBOSE-1-PHOSPHATE PDB ? 2 R1P 1-O-phosphono-alpha-D-ribose PDB ? 3 R1P 1-O-phosphono-D-ribose PDB ? 4 R1P 1-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 R1P C5 "C5'" C 0 1 N N N 21.670 90.619 77.110 1.695 -0.423 2.674 C5 R1P 1 R1P O5 "O5'" O 0 1 N N N 21.652 91.899 77.885 2.859 0.374 2.453 O5 R1P 2 R1P C4 "C4'" C 0 1 N N R 20.431 89.888 76.752 0.473 0.283 2.084 C4 R1P 3 R1P O4 "O4'" O 0 1 N N N 19.665 90.863 75.884 0.639 0.442 0.670 O4 R1P 4 R1P C1 "C1'" C 0 1 N N R 19.166 90.354 74.642 -0.389 -0.276 -0.028 C1 R1P 5 R1P C2 "C2'" C 0 1 N N R 20.099 89.019 74.517 -1.562 -0.385 0.978 C2 R1P 6 R1P O2 "O2'" O 0 1 N N N 19.488 88.008 73.702 -2.337 0.815 0.997 O2 R1P 7 R1P C3 "C3'" C 0 1 N N S 20.417 88.545 75.975 -0.789 -0.574 2.314 C3 R1P 8 R1P O3 "O3'" O 0 1 N N N 19.366 87.658 76.395 -1.553 -0.081 3.417 O3 R1P 9 R1P O1 "O1'" O 0 1 N N N 17.671 89.663 74.959 -0.796 0.446 -1.191 O1 R1P 10 R1P P P P 0 1 N N N 16.464 89.647 73.721 0.118 -0.076 -2.408 P R1P 11 R1P O1P O1P O 0 1 N N N 15.150 89.010 74.146 -0.089 -1.529 -2.593 O1P R1P 12 R1P O2P O2P O 0 1 N N N 16.505 91.144 73.508 -0.289 0.700 -3.758 O2P R1P 13 R1P O3P O3P O 0 1 N N N 17.158 89.048 72.525 1.668 0.206 -2.074 O3P R1P 14 R1P H51 "H5'1" H 0 1 N N N 22.236 90.803 76.167 1.822 -1.392 2.192 H51 R1P 15 R1P H52 "H5'2" H 0 1 N N N 22.336 89.907 77.650 1.550 -0.566 3.745 H52 R1P 16 R1P HO5 "HO5'" H 0 1 N Y N 22.446 92.367 78.114 3.605 -0.105 2.839 HO5 R1P 17 R1P H4 "H4'" H 0 1 N N N 20.047 89.563 77.747 0.348 1.259 2.554 H4 R1P 18 R1P H1 "H1'" H 0 1 N N N 19.142 91.096 73.810 -0.035 -1.269 -0.305 H1 R1P 19 R1P H2 "H2'" H 0 1 N N N 21.053 89.247 73.988 -2.188 -1.250 0.760 H2 R1P 20 R1P HO2 "HO2'" H 0 1 N Y N 20.030 87.231 73.629 -2.698 0.928 0.108 HO2 R1P 21 R1P H3 "H3'" H 0 1 N N N 21.366 87.978 76.117 -0.524 -1.620 2.464 H3 R1P 22 R1P HO3 "HO3'" H 0 1 N Y N 19.357 86.835 75.919 -2.366 -0.603 3.448 HO3 R1P 23 R1P HOP2 HOP2 H 0 0 N N N 15.841 91.135 72.827 0.281 0.359 -4.460 HOP2 R1P 24 R1P HOP3 HOP3 H 0 0 N N N 16.494 89.039 71.844 1.760 1.161 -1.961 HOP3 R1P 25 # # 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 R1P C5 O5 SING N N 1 R1P C5 C4 SING N N 2 R1P C5 H51 SING N N 3 R1P C5 H52 SING N N 4 R1P O5 HO5 SING N N 5 R1P C4 O4 SING N N 6 R1P C4 C3 SING N N 7 R1P C4 H4 SING N N 8 R1P O4 C1 SING N N 9 R1P C1 C2 SING N N 10 R1P C1 O1 SING N N 11 R1P C1 H1 SING N N 12 R1P C2 O2 SING N N 13 R1P C2 C3 SING N N 14 R1P C2 H2 SING N N 15 R1P O2 HO2 SING N N 16 R1P C3 O3 SING N N 17 R1P C3 H3 SING N N 18 R1P O3 HO3 SING N N 19 R1P O1 P SING N N 20 R1P P O1P DOUB N N 21 R1P P O2P SING N N 22 R1P P O3P SING N N 23 R1P O2P HOP2 SING N N 24 R1P O3P HOP3 SING N N 25 # # 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 R1P SMILES ACDLabs 10.04 "O=P(OC1OC(C(O)C1O)CO)(O)O" R1P SMILES_CANONICAL CACTVS 3.341 "OC[C@H]1O[C@H](O[P](O)(O)=O)[C@H](O)[C@@H]1O" R1P SMILES CACTVS 3.341 "OC[CH]1O[CH](O[P](O)(O)=O)[CH](O)[CH]1O" R1P SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C([C@@H]1[C@H]([C@H]([C@H](O1)OP(=O)(O)O)O)O)O" R1P SMILES "OpenEye OEToolkits" 1.5.0 "C(C1C(C(C(O1)OP(=O)(O)O)O)O)O" R1P InChI InChI 1.03 "InChI=1S/C5H11O8P/c6-1-2-3(7)4(8)5(12-2)13-14(9,10)11/h2-8H,1H2,(H2,9,10,11)/t2-,3-,4-,5-/m1/s1" R1P InChIKey InChI 1.03 YXJDFQJKERBOBM-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 R1P "SYSTEMATIC NAME" ACDLabs 10.04 1-O-phosphono-alpha-D-ribofuranose R1P "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl] dihydrogen phosphate" R1P "IUPAC CARBOHYDRATE SYMBOL" PDB-CARE 1.0 a-D-Ribf1PO3 # _pdbx_chem_comp_related.comp_id R1P _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 R1P C1 RIB C1 "Carbohydrate core" 2 R1P C2 RIB C2 "Carbohydrate core" 3 R1P C3 RIB C3 "Carbohydrate core" 4 R1P C4 RIB C4 "Carbohydrate core" 5 R1P C5 RIB C5 "Carbohydrate core" 6 R1P O1 RIB O1 "Carbohydrate core" 7 R1P O2 RIB O2 "Carbohydrate core" 8 R1P O3 RIB O3 "Carbohydrate core" 9 R1P O4 RIB O4 "Carbohydrate core" 10 R1P O5 RIB O5 "Carbohydrate core" 11 R1P H1 RIB H1 "Carbohydrate core" 12 R1P H2 RIB H2 "Carbohydrate core" 13 R1P H3 RIB H3 "Carbohydrate core" 14 R1P H4 RIB H4 "Carbohydrate core" 15 R1P H51 RIB H51 "Carbohydrate core" 16 R1P H52 RIB H52 "Carbohydrate core" 17 R1P HO2 RIB HO2 "Carbohydrate core" 18 R1P HO3 RIB HO3 "Carbohydrate core" 19 R1P HO5 RIB HO5 "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 R1P "CARBOHYDRATE ISOMER" D PDB ? R1P "CARBOHYDRATE RING" furanose PDB ? R1P "CARBOHYDRATE ANOMER" alpha PDB ? R1P "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 R1P "Create component" 1999-07-08 RCSB R1P "Modify descriptor" 2011-06-04 RCSB R1P "Other modification" 2020-07-03 RCSB R1P "Modify parent residue" 2020-07-17 RCSB R1P "Modify name" 2020-07-17 RCSB R1P "Modify synonyms" 2020-07-17 RCSB R1P "Modify linking type" 2020-07-17 RCSB R1P "Modify atom id" 2020-07-17 RCSB R1P "Modify component atom id" 2020-07-17 RCSB R1P "Modify leaving atom flag" 2020-07-17 RCSB ##