data_GRF # _chem_comp.id GRF _chem_comp.name 5-O-phosphono-beta-D-ribofuranosylamine _chem_comp.type "D-saccharide, beta linking" _chem_comp.pdbx_type ATOMS _chem_comp.formula "C5 H12 N O7 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "5-O-phosphono-beta-D-ribosylamine; 5-O-phosphono-D-ribosylamine; 5-O-phosphono-ribosylamine" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2005-06-16 _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 229.125 _chem_comp.one_letter_code ? _chem_comp.three_letter_code GRF _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 1ZLY _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 GRF 5-O-phosphono-beta-D-ribosylamine PDB ? 2 GRF 5-O-phosphono-D-ribosylamine PDB ? 3 GRF 5-O-phosphono-ribosylamine 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 GRF C3 C1 C 0 1 N N S 40.632 27.187 31.545 1.892 -1.028 0.441 C3 GRF 1 GRF O3 O6 O 0 1 N N N 41.644 26.860 30.620 2.201 -2.278 -0.180 O3 GRF 2 GRF C2 C2 C 0 1 N N R 40.963 28.424 32.418 3.136 -0.109 0.460 C2 GRF 3 GRF O2 O8 O 0 1 N N N 41.697 29.362 31.703 4.252 -0.764 -0.148 O2 GRF 4 GRF C1 C3 C 0 1 N N R 39.571 28.909 32.912 2.704 1.120 -0.370 C1 GRF 5 GRF O4 O4 O 0 1 N N N 38.650 28.316 32.009 1.262 1.136 -0.286 O4 GRF 6 GRF C4 C5 C 0 1 N N R 39.286 27.489 30.962 0.859 -0.246 -0.399 C4 GRF 7 GRF C5 C10 C 0 1 N N N 38.443 26.305 30.627 -0.549 -0.439 0.168 C5 GRF 8 GRF O5 O12 O 0 1 N N N 38.576 25.280 31.619 -1.491 0.257 -0.650 O5 GRF 9 GRF N19 N19 N 0 1 N N N 39.169 28.491 34.296 3.263 2.349 0.208 N19 GRF 10 GRF P15 P15 P 0 1 N N N 37.862 23.875 31.645 -2.943 0.013 0.002 P15 GRF 11 GRF O16 O16 O 0 1 N N N 38.472 23.032 32.658 -3.001 0.701 1.456 O16 GRF 12 GRF O17 O17 O 0 1 N N N 37.886 23.235 30.334 -3.186 -1.441 0.134 O17 GRF 13 GRF O18 O18 O 0 1 N N N 36.391 24.237 32.199 -4.072 0.661 -0.945 O18 GRF 14 GRF H3 H1 H 0 1 N N N 40.591 26.243 32.137 1.519 -1.188 1.453 H3 GRF 15 GRF HO3 HO6 H 0 1 N Y N 41.441 26.101 30.084 2.847 -2.720 0.387 HO3 GRF 16 GRF H2 H2 H 0 1 N N N 41.626 28.207 33.287 3.378 0.186 1.481 H2 GRF 17 GRF HO2 HO8 H 0 1 N Y N 41.899 30.120 32.238 4.994 -0.146 -0.108 HO2 GRF 18 GRF H1 H3 H 0 1 N N N 39.594 30.023 32.946 3.023 1.010 -1.406 H1 GRF 19 GRF H4 H5 H 0 1 N N N 39.396 27.984 29.969 0.895 -0.568 -1.440 H4 GRF 20 GRF H51 H101 H 0 1 N N N 37.376 26.590 30.472 -0.793 -1.501 0.181 H51 GRF 21 GRF H52 H102 H 0 1 N N N 38.665 25.918 29.605 -0.588 -0.044 1.183 H52 GRF 22 GRF H191 H191 H 0 0 N N N 38.255 28.809 34.620 2.927 3.115 -0.357 H191 GRF 23 GRF H192 H192 H 0 0 N N N 39.887 28.774 34.962 2.845 2.457 1.120 H192 GRF 24 GRF H16 H16 H 0 1 N N N 38.041 22.185 32.673 -2.838 1.645 1.325 H16 GRF 25 GRF H18 H18 H 0 1 N N N 35.960 23.390 32.214 -4.924 0.493 -0.519 H18 GRF 26 # # 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 GRF C3 O3 SING N N 1 GRF C3 C2 SING N N 2 GRF C3 C4 SING N N 3 GRF C3 H3 SING N N 4 GRF O3 HO3 SING N N 5 GRF C2 O2 SING N N 6 GRF C2 C1 SING N N 7 GRF C2 H2 SING N N 8 GRF O2 HO2 SING N N 9 GRF C1 O4 SING N N 10 GRF C1 N19 SING N N 11 GRF C1 H1 SING N N 12 GRF O4 C4 SING N N 13 GRF C4 C5 SING N N 14 GRF C4 H4 SING N N 15 GRF C5 O5 SING N N 16 GRF C5 H51 SING N N 17 GRF C5 H52 SING N N 18 GRF O5 P15 SING N N 19 GRF N19 H191 SING N N 20 GRF N19 H192 SING N N 21 GRF P15 O16 SING N N 22 GRF P15 O17 DOUB N N 23 GRF P15 O18 SING N N 24 GRF O16 H16 SING N N 25 GRF O18 H18 SING N N 26 # # 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 GRF SMILES ACDLabs 10.04 "O=P(O)(O)OCC1OC(N)C(O)C1O" GRF SMILES_CANONICAL CACTVS 3.341 "N[C@@H]1O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]1O" GRF SMILES CACTVS 3.341 "N[CH]1O[CH](CO[P](O)(O)=O)[CH](O)[CH]1O" GRF SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C([C@@H]1[C@H]([C@H]([C@@H](O1)N)O)O)OP(=O)(O)O" GRF SMILES "OpenEye OEToolkits" 1.5.0 "C(C1C(C(C(O1)N)O)O)OP(=O)(O)O" GRF InChI InChI 1.03 "InChI=1S/C5H12NO7P/c6-5-4(8)3(7)2(13-5)1-12-14(9,10)11/h2-5,7-8H,1,6H2,(H2,9,10,11)/t2-,3-,4-,5-/m1/s1" GRF InChIKey InChI 1.03 SKCBPEVYGOQGJN-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 GRF "SYSTEMATIC NAME" ACDLabs 10.04 5-O-phosphono-beta-D-ribofuranosylamine GRF "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-amino-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphate" # # 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 GRF "CARBOHYDRATE ISOMER" D PDB ? GRF "CARBOHYDRATE RING" furanose PDB ? GRF "CARBOHYDRATE ANOMER" beta PDB ? GRF "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 GRF "Create component" 2005-06-16 RCSB GRF "Modify descriptor" 2011-06-04 RCSB GRF "Other modification" 2020-07-03 RCSB GRF "Modify name" 2020-07-17 RCSB GRF "Modify synonyms" 2020-07-17 RCSB GRF "Modify internal type" 2020-07-17 RCSB GRF "Modify linking type" 2020-07-17 RCSB GRF "Modify atom id" 2020-07-17 RCSB GRF "Modify component atom id" 2020-07-17 RCSB GRF "Modify leaving atom flag" 2020-07-17 RCSB ##