data_UA3 # _chem_comp.id UA3 _chem_comp.name "URACIL ARABINOSE-3'-PHOSPHATE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C9 H13 N2 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "1-(3-O-PHOSPHONO-BETA-L-ARABINOFURANOSYL)PYRIMIDINE-2,4(1H,3H)-DIONE" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2004-07-27 _chem_comp.pdbx_modified_date 2021-03-13 _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 324.181 _chem_comp.one_letter_code ? _chem_comp.three_letter_code UA3 _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 1W4O _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # 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 UA3 N1 N1 N 0 1 Y N N 36.503 -2.084 11.711 -0.022 0.351 -2.199 N1 UA3 1 UA3 C2 C2 C 0 1 Y N N 35.210 -2.157 11.115 -1.119 0.709 -2.891 C2 UA3 2 UA3 O2 O2 O 0 1 N N N 34.738 -1.253 10.524 -1.988 1.359 -2.343 O2 UA3 3 UA3 N3 N3 N 0 1 Y N N 34.584 -3.397 11.305 -1.263 0.365 -4.185 N3 UA3 4 UA3 C4 C4 C 0 1 Y N N 35.079 -4.524 11.999 -0.308 -0.354 -4.807 C4 UA3 5 UA3 O4 O4 O 0 1 N N N 34.381 -5.512 12.054 -0.439 -0.670 -5.976 O4 UA3 6 UA3 C5 C5 C 0 1 Y N N 36.401 -4.353 12.579 0.848 -0.742 -4.088 C5 UA3 7 UA3 C6 C6 C 0 1 Y N N 37.056 -3.188 12.429 0.969 -0.380 -2.793 C6 UA3 8 UA3 "O5'" O5* O 0 1 N N N 40.777 0.336 13.964 3.915 0.423 1.092 "O5'" UA3 9 UA3 "C5'" C5* C 0 1 N N N 40.223 0.596 12.517 2.707 -0.225 1.493 "C5'" UA3 10 UA3 "C4'" C4* C 0 1 N N R 38.937 0.320 12.285 1.506 0.610 1.047 "C4'" UA3 11 UA3 "O4'" O4* O 0 1 N N N 38.734 -0.959 11.693 1.493 0.720 -0.386 "O4'" UA3 12 UA3 "C3'" C3* C 0 1 N N S 38.033 1.171 12.879 0.197 -0.084 1.469 "C3'" UA3 13 UA3 "O3'" O3* O 0 1 N N N 37.313 2.450 12.414 -0.561 0.752 2.344 "O3'" UA3 14 UA3 "C2'" C2* C 0 1 N N S 36.882 -0.127 13.065 -0.560 -0.303 0.133 "C2'" UA3 15 UA3 "O2'" O2* O 0 1 N N N 37.063 -0.815 14.546 -0.354 -1.627 -0.361 "O2'" UA3 16 UA3 "C1'" C1* C 0 1 N N R 37.181 -0.862 11.577 0.108 0.744 -0.793 "C1'" UA3 17 UA3 O3P O3P O 0 1 N N N 35.124 3.180 13.313 -1.706 0.780 4.710 O3P UA3 18 UA3 P P P 0 1 N N N 36.674 3.571 13.193 -0.850 -0.106 3.675 P UA3 19 UA3 O1P O1P O 0 1 N N N 36.906 4.864 12.468 0.434 -0.492 4.301 O1P UA3 20 UA3 O2P O2P O 0 1 N N N 37.269 3.614 14.575 -1.678 -1.431 3.289 O2P UA3 21 UA3 H3 H3 H 0 1 N N N 33.657 -3.498 10.891 -2.058 0.635 -4.671 H3 UA3 22 UA3 H5 H5 H 0 1 N N N 36.867 -5.179 13.142 1.624 -1.319 -4.570 H5 UA3 23 UA3 H6 H6 H 0 1 N N N 38.058 -3.081 12.877 1.844 -0.666 -2.229 H6 UA3 24 UA3 "H5'" H5* H 0 1 N N N 41.692 0.532 14.129 4.645 -0.134 1.392 "H5'" UA3 25 UA3 H51 1H5 H 0 1 N N N 40.429 1.653 12.229 2.654 -1.212 1.033 H51 UA3 26 UA3 H52 2H5 H 0 1 N N N 40.854 0.049 11.778 2.694 -0.329 2.578 H52 UA3 27 UA3 H4 H4 H 0 1 N N N 38.238 0.633 11.474 1.559 1.603 1.494 H4 UA3 28 UA3 "H3'" H3* H 0 1 N N N 38.429 1.387 13.899 0.411 -1.040 1.947 "H3'" UA3 29 UA3 "H2'" H2* H 0 1 N N N 35.861 0.319 13.022 -1.623 -0.094 0.252 "H2'" UA3 30 UA3 HB HB H 0 1 N N N 36.895 -0.401 15.384 -0.838 -1.692 -1.196 HB UA3 31 UA3 "H1'" H1* H 0 1 N N N 36.838 -0.257 10.706 -0.322 1.731 -0.630 "H1'" UA3 32 UA3 H3P H3P H 0 1 N N N 34.721 3.887 13.804 -1.857 0.230 5.491 H3P UA3 33 UA3 H2P H2P H 0 1 N N N 36.866 4.321 15.066 -2.506 -1.136 2.886 H2P UA3 34 # # 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 UA3 N1 C2 SING Y N 1 UA3 N1 C6 SING Y N 2 UA3 N1 "C1'" SING N N 3 UA3 C2 O2 DOUB N N 4 UA3 C2 N3 SING Y N 5 UA3 N3 C4 SING Y N 6 UA3 N3 H3 SING N N 7 UA3 C4 O4 DOUB N N 8 UA3 C4 C5 SING Y N 9 UA3 C5 C6 DOUB Y N 10 UA3 C5 H5 SING N N 11 UA3 C6 H6 SING N N 12 UA3 "O5'" "C5'" SING N N 13 UA3 "O5'" "H5'" SING N N 14 UA3 "C5'" "C4'" SING N N 15 UA3 "C5'" H51 SING N N 16 UA3 "C5'" H52 SING N N 17 UA3 "C4'" "O4'" SING N N 18 UA3 "C4'" "C3'" SING N N 19 UA3 "C4'" H4 SING N N 20 UA3 "O4'" "C1'" SING N N 21 UA3 "C3'" "O3'" SING N N 22 UA3 "C3'" "C2'" SING N N 23 UA3 "C3'" "H3'" SING N N 24 UA3 "O3'" P SING N N 25 UA3 "C2'" "O2'" SING N N 26 UA3 "C2'" "C1'" SING N N 27 UA3 "C2'" "H2'" SING N N 28 UA3 "O2'" HB SING N N 29 UA3 "C1'" "H1'" SING N N 30 UA3 O3P P SING N N 31 UA3 O3P H3P SING N N 32 UA3 P O1P DOUB N N 33 UA3 P O2P SING N N 34 UA3 O2P H2P SING N N 35 # # 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 UA3 SMILES ACDLabs 10.04 "O=C1NC(=O)N(C=C1)C2OC(C(OP(=O)(O)O)C2O)CO" UA3 SMILES_CANONICAL CACTVS 3.341 "OC[C@H]1O[C@H]([C@@H](O)[C@@H]1O[P](O)(O)=O)N2C=CC(=O)NC2=O" UA3 SMILES CACTVS 3.341 "OC[CH]1O[CH]([CH](O)[CH]1O[P](O)(O)=O)N2C=CC(=O)NC2=O" UA3 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)NC1=O)[C@H]2[C@H]([C@@H](C(O2)CO)OP(=O)(O)O)O" UA3 SMILES "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)NC1=O)C2C(C(C(O2)CO)OP(=O)(O)O)O" UA3 InChI InChI 1.03 "InChI=1S/C9H13N2O9P/c12-3-4-7(20-21(16,17)18)6(14)8(19-4)11-2-1-5(13)10-9(11)15/h1-2,4,6-8,12,14H,3H2,(H,10,13,15)(H2,16,17,18)/t4-,6+,7-,8-/m1/s1" UA3 InChIKey InChI 1.03 FOGRQMPFHUHIGU-PXBUCIJWSA-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 UA3 "SYSTEMATIC NAME" ACDLabs 10.04 "1-(3-O-phosphono-beta-D-arabinofuranosyl)pyrimidine-2,4(1H,3H)-dione" UA3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(3S,4S,5R)-5-(2,4-dioxopyrimidin-1-yl)-4-hydroxy-2-(hydroxymethyl)oxolan-3-yl] dihydrogen phosphate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site UA3 "Create component" 2004-07-27 RCSB UA3 "Modify descriptor" 2011-06-04 RCSB UA3 "Modify synonyms" 2021-03-13 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id UA3 _pdbx_chem_comp_synonyms.name "1-(3-O-PHOSPHONO-BETA-L-ARABINOFURANOSYL)PYRIMIDINE-2,4(1H,3H)-DIONE" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? ##