data_CNU # _chem_comp.id CNU _chem_comp.name "5-CYANO-URIDINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA linking" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H12 N3 O9 P" _chem_comp.mon_nstd_parent_comp_id U _chem_comp.pdbx_synonyms "5-cyano-UMP; 5-cyanouridine 5'-(dihydrogen phosphate)" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2007-12-14 _chem_comp.pdbx_modified_date 2020-06-17 _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 349.191 _chem_comp.one_letter_code U _chem_comp.three_letter_code CNU _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 3BK0 _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 CNU O1P O1P O 0 1 N N N 26.950 -8.123 13.316 -5.636 -0.193 -0.101 O1P CNU 1 CNU P P P 0 1 N N N 25.987 -8.452 14.421 -4.549 -1.144 0.224 P CNU 2 CNU O2P O2P O 0 1 N N N 24.652 -8.954 13.871 -4.983 -2.044 1.486 O2P CNU 3 CNU O3P O3P O 0 1 N Y N 26.504 -9.214 15.609 -4.272 -2.096 -1.044 O3P CNU 4 CNU "O5'" "O5'" O 0 1 N N N 25.708 -7.057 15.170 -3.210 -0.325 0.583 "O5'" CNU 5 CNU "C5'" "C5'" C 0 1 N N N 24.919 -6.024 14.587 -2.631 0.643 -0.294 "C5'" CNU 6 CNU "C4'" "C4'" C 0 1 N N R 24.895 -4.863 15.576 -1.374 1.229 0.352 "C4'" CNU 7 CNU "O4'" "O4'" O 0 1 N N N 24.234 -3.756 14.983 -0.325 0.237 0.400 "O4'" CNU 8 CNU "C3'" "C3'" C 0 1 N N S 24.143 -5.192 16.857 -0.801 2.367 -0.522 "C3'" CNU 9 CNU "O3'" "O3'" O 0 1 N N N 24.749 -4.482 17.965 -1.212 3.639 -0.020 "O3'" CNU 10 CNU "C2'" "C2'" C 0 1 N N R 22.736 -4.680 16.546 0.730 2.203 -0.394 "C2'" CNU 11 CNU "O2'" "O2'" O 0 1 N N N 22.048 -4.362 17.764 1.311 3.371 0.191 "O2'" CNU 12 CNU "C1'" "C1'" C 0 1 N N R 23.004 -3.444 15.701 0.901 0.986 0.542 "C1'" CNU 13 CNU N1 N1 N 0 1 N N N 21.937 -3.113 14.744 2.046 0.175 0.120 N1 CNU 14 CNU C2 C2 C 0 1 N N N 21.538 -3.995 13.714 2.037 -0.389 -1.098 C2 CNU 15 CNU O2 O2 O 0 1 N N N 22.076 -5.134 13.655 1.077 -0.212 -1.822 O2 CNU 16 CNU N3 N3 N 0 1 N N N 20.578 -3.614 12.826 3.057 -1.143 -1.544 N3 CNU 17 CNU C4 C4 C 0 1 N N N 20.007 -2.389 12.866 4.139 -1.359 -0.766 C4 CNU 18 CNU O4 O4 O 0 1 N N N 19.126 -2.041 12.023 5.065 -2.040 -1.165 O4 CNU 19 CNU C6 C6 C 0 1 N N N 21.403 -1.878 14.844 3.097 0.015 0.969 C6 CNU 20 CNU C5 C5 C 0 1 N N N 20.429 -1.450 13.928 4.174 -0.752 0.574 C5 CNU 21 CNU C52 C52 C 0 1 N N N 19.919 -0.262 14.017 5.296 -0.948 1.442 C52 CNU 22 CNU N53 N53 N 0 1 N N N 19.438 0.800 14.072 6.186 -1.104 2.131 N53 CNU 23 CNU HO2P HO2P H 0 0 N N N 24.034 -9.058 14.585 -5.784 -2.566 1.341 HO2P CNU 24 CNU HO3P HO3P H 0 0 N Y N 26.613 -10.129 15.376 -3.570 -2.745 -0.903 HO3P CNU 25 CNU "H5'" "H5'" H 0 1 N N N 25.360 -5.702 13.632 -2.367 0.167 -1.238 "H5'" CNU 26 CNU "H5'A" "H5'A" H 0 0 N N N 23.899 -6.382 14.381 -3.350 1.442 -0.479 "H5'A" CNU 27 CNU "H4'" "H4'" H 0 1 N N N 25.944 -4.644 15.825 -1.598 1.596 1.353 "H4'" CNU 28 CNU "H3'" "H3'" H 0 1 N N N 24.151 -6.254 17.143 -1.114 2.247 -1.559 "H3'" CNU 29 CNU "HO3'" "HO3'" H 0 0 N Y N 24.882 -5.081 18.691 -0.880 4.390 -0.531 "HO3'" CNU 30 CNU "H2'" "H2'" H 0 1 N N N 22.094 -5.408 16.029 1.176 2.004 -1.369 "H2'" CNU 31 CNU "HO2'" "HO2'" H 0 0 N N N 22.676 -4.292 18.474 1.181 4.177 -0.326 "HO2'" CNU 32 CNU "H1'" "H1'" H 0 1 N N N 23.068 -2.558 16.350 1.028 1.316 1.573 "H1'" CNU 33 CNU HN3 HN3 H 0 1 N N N 20.286 -4.261 12.122 3.015 -1.534 -2.430 HN3 CNU 34 CNU H6 H6 H 0 1 N N N 21.727 -1.215 15.633 3.086 0.481 1.943 H6 CNU 35 # # 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 CNU O1P P DOUB N N 1 CNU O2P P SING N N 2 CNU P "O5'" SING N N 3 CNU P O3P SING N N 4 CNU O2P HO2P SING N N 5 CNU O3P HO3P SING N N 6 CNU "C5'" "O5'" SING N N 7 CNU "C5'" "C4'" SING N N 8 CNU "C5'" "H5'" SING N N 9 CNU "C5'" "H5'A" SING N N 10 CNU "O4'" "C4'" SING N N 11 CNU "C4'" "C3'" SING N N 12 CNU "C4'" "H4'" SING N N 13 CNU "O4'" "C1'" SING N N 14 CNU "C2'" "C3'" SING N N 15 CNU "C3'" "O3'" SING N N 16 CNU "C3'" "H3'" SING N N 17 CNU "O3'" "HO3'" SING N N 18 CNU "C1'" "C2'" SING N N 19 CNU "C2'" "O2'" SING N N 20 CNU "C2'" "H2'" SING N N 21 CNU "O2'" "HO2'" SING N N 22 CNU N1 "C1'" SING N N 23 CNU "C1'" "H1'" SING N N 24 CNU C2 N1 SING N N 25 CNU N1 C6 SING N N 26 CNU N3 C2 SING N N 27 CNU O2 C2 DOUB N N 28 CNU N3 C4 SING N N 29 CNU N3 HN3 SING N N 30 CNU O4 C4 DOUB N N 31 CNU C4 C5 SING N N 32 CNU C5 C6 DOUB N N 33 CNU C6 H6 SING N N 34 CNU C5 C52 SING N N 35 CNU C52 N53 TRIP N N 36 # # 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 CNU SMILES ACDLabs 10.04 "N#CC=1C(=O)NC(=O)N(C=1)C2OC(C(O)C2O)COP(=O)(O)O" CNU SMILES_CANONICAL CACTVS 3.341 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=C(C#N)C(=O)NC2=O" CNU SMILES CACTVS 3.341 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)N2C=C(C#N)C(=O)NC2=O" CNU SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=C(C(=O)NC(=O)N1[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)C#N" CNU SMILES "OpenEye OEToolkits" 1.5.0 "C1=C(C(=O)NC(=O)N1C2C(C(C(O2)COP(=O)(O)O)O)O)C#N" CNU InChI InChI 1.03 "InChI=1S/C10H12N3O9P/c11-1-4-2-13(10(17)12-8(4)16)9-7(15)6(14)5(22-9)3-21-23(18,19)20/h2,5-7,9,14-15H,3H2,(H,12,16,17)(H2,18,19,20)/t5-,6-,7-,9-/m1/s1" CNU InChIKey InChI 1.03 BUHKUGLYORHFNN-JXOAFFINSA-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 CNU "SYSTEMATIC NAME" ACDLabs 10.04 "5-cyanouridine 5'-(dihydrogen phosphate)" CNU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(5-cyano-2,4-dioxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl 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 CNU "Create component" 2007-12-14 RCSB CNU "Modify descriptor" 2011-06-04 RCSB CNU "Modify synonyms" 2020-06-05 PDBE # # 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 CNU 5-cyano-UMP ? ? 2 CNU "5-cyanouridine 5'-(dihydrogen phosphate)" ? ? ##