data_U # _chem_comp.id U _chem_comp.name "URIDINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C9 H13 N2 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2011-06-04 _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 U _chem_comp.three_letter_code U _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 ? _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # 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 U OP3 O3P O 0 1 N Y N 29.106 2.045 0.152 -2.122 1.033 -4.690 OP3 U 1 U P P P 0 1 N N N 28.940 2.442 -1.379 -1.030 0.047 -4.037 P U 2 U OP1 O1P O 0 1 N N N 28.520 1.217 -2.078 -1.679 -1.228 -3.660 OP1 U 3 U OP2 O2P O 0 1 N N N 30.133 3.129 -1.866 0.138 -0.241 -5.107 OP2 U 4 U "O5'" O5* O 0 1 N N N 27.784 3.522 -1.387 -0.399 0.736 -2.726 "O5'" U 5 U "C5'" C5* C 0 1 N N N 26.432 3.117 -1.047 0.557 -0.182 -2.196 "C5'" U 6 U "C4'" C4* C 0 1 N N R 25.647 4.373 -0.834 1.197 0.415 -0.942 "C4'" U 7 U "O4'" O4* O 0 1 N N N 26.122 5.093 0.327 0.194 0.645 0.074 "O4'" U 8 U "C3'" C3* C 0 1 N N S 25.763 5.465 -1.895 2.181 -0.588 -0.301 "C3'" U 9 U "O3'" O3* O 0 1 N N N 25.041 5.077 -3.062 3.524 -0.288 -0.686 "O3'" U 10 U "C2'" C2* C 0 1 N N R 25.213 6.663 -1.148 1.995 -0.383 1.218 "C2'" U 11 U "O2'" O2* O 0 1 N N N 23.829 6.500 -1.012 3.219 0.046 1.819 "O2'" U 12 U "C1'" C1* C 0 1 N N R 25.917 6.524 0.133 0.922 0.723 1.319 "C1'" U 13 U N1 N1 N 0 1 N N N 27.224 7.194 0.137 0.028 0.464 2.451 N1 U 14 U C2 C2 C 0 1 N N N 27.201 8.578 0.406 -0.690 -0.671 2.486 C2 U 15 U O2 O2 O 0 1 N N N 26.156 9.121 0.619 -0.587 -1.474 1.580 O2 U 16 U N3 N3 N 0 1 N N N 28.408 9.189 0.403 -1.515 -0.936 3.517 N3 U 17 U C4 C4 C 0 1 N N N 29.660 8.606 0.152 -1.641 -0.055 4.530 C4 U 18 U O4 O4 O 0 1 N N N 30.676 9.330 0.195 -2.391 -0.292 5.460 O4 U 19 U C5 C5 C 0 1 N N N 29.604 7.215 -0.113 -0.894 1.146 4.502 C5 U 20 U C6 C6 C 0 1 N N N 28.447 6.605 -0.111 -0.070 1.384 3.459 C6 U 21 U HOP3 3HOP H 0 0 N N N 29.377 2.835 0.603 -2.475 0.583 -5.470 HOP3 U 22 U HOP2 2HOP H 0 0 N N N 30.404 3.919 -1.414 0.534 0.613 -5.325 HOP2 U 23 U "H5'" 1H5* H 0 1 N N N 25.974 2.434 -1.800 1.329 -0.373 -2.942 "H5'" U 24 U "H5''" 2H5* H 0 0 N N N 26.387 2.417 -0.179 0.060 -1.117 -1.940 "H5''" U 25 U "H4'" H4* H 0 1 N N N 24.613 3.957 -0.795 1.712 1.345 -1.185 "H4'" U 26 U "H3'" H3* H 0 1 N N N 26.782 5.677 -2.293 1.923 -1.609 -0.583 "H3'" U 27 U "HO3'" H3T H 0 0 N Y N 25.113 5.756 -3.722 4.094 -0.926 -0.234 "HO3'" U 28 U "H2'" H2* H 0 1 N N N 25.358 7.661 -1.622 1.643 -1.301 1.688 "H2'" U 29 U "HO2'" 2HO* H 0 0 N N N 23.484 7.251 -0.543 3.865 -0.657 1.671 "HO2'" U 30 U "H1'" H1* H 0 1 N N N 25.312 6.996 0.941 1.392 1.700 1.423 "H1'" U 31 U H3 H3 H 0 1 N N N 28.370 10.187 0.610 -2.024 -1.762 3.528 H3 U 32 U H5 H5 H 0 1 N N N 30.486 6.589 -0.327 -0.982 1.863 5.305 H5 U 33 U H6 H6 H 0 1 N N N 28.506 5.526 -0.332 0.507 2.295 3.421 H6 U 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 U OP3 P SING N N 1 U OP3 HOP3 SING N N 2 U P OP1 DOUB N N 3 U P OP2 SING N N 4 U P "O5'" SING N N 5 U OP2 HOP2 SING N N 6 U "O5'" "C5'" SING N N 7 U "C5'" "C4'" SING N N 8 U "C5'" "H5'" SING N N 9 U "C5'" "H5''" SING N N 10 U "C4'" "O4'" SING N N 11 U "C4'" "C3'" SING N N 12 U "C4'" "H4'" SING N N 13 U "O4'" "C1'" SING N N 14 U "C3'" "O3'" SING N N 15 U "C3'" "C2'" SING N N 16 U "C3'" "H3'" SING N N 17 U "O3'" "HO3'" SING N N 18 U "C2'" "O2'" SING N N 19 U "C2'" "C1'" SING N N 20 U "C2'" "H2'" SING N N 21 U "O2'" "HO2'" SING N N 22 U "C1'" N1 SING N N 23 U "C1'" "H1'" SING N N 24 U N1 C2 SING N N 25 U N1 C6 SING N N 26 U C2 O2 DOUB N N 27 U C2 N3 SING N N 28 U N3 C4 SING N N 29 U N3 H3 SING N N 30 U C4 O4 DOUB N N 31 U C4 C5 SING N N 32 U C5 C6 DOUB N N 33 U C5 H5 SING N N 34 U C6 H6 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 U SMILES ACDLabs 10.04 "O=C1NC(=O)N(C=C1)C2OC(C(O)C2O)COP(=O)(O)O" U SMILES_CANONICAL CACTVS 3.341 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=CC(=O)NC2=O" U SMILES CACTVS 3.341 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)N2C=CC(=O)NC2=O" U SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O" U SMILES "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)O)O)O" U InChI InChI 1.03 "InChI=1S/C9H13N2O9P/c12-5-1-2-11(9(15)10-5)8-7(14)6(13)4(20-8)3-19-21(16,17)18/h1-2,4,6-8,13-14H,3H2,(H,10,12,15)(H2,16,17,18)/t4-,6-,7-,8-/m1/s1" U InChIKey InChI 1.03 DJJCXFVJDGTHFX-XVFCMESISA-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 U "SYSTEMATIC NAME" ACDLabs 10.04 ;5'-uridylic acid ; U "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-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 U "Create component" 1999-07-08 PDBJ U "Modify descriptor" 2011-06-04 RCSB #