data_UPU # _chem_comp.id UPU _chem_comp.name "[(2R,3S,4R,5R)-5-(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL (2R,3S,4R,5R)-5-(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)-4-HYDROXY-2-(HYDROXYMETHYL)TETRAHYDROFURAN-3-YL HYDROGEN (S)-PHOSPHATE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H23 N4 O14 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2007-05-24 _chem_comp.pdbx_modified_date 2011-06-04 _chem_comp.pdbx_ambiguous_flag ? _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 550.367 _chem_comp.one_letter_code ? _chem_comp.three_letter_code UPU _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details "Corina V3.40" _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 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 UPU O2A O2A O 0 1 N N N 28.613 19.251 -50.670 5.858 1.892 -2.231 O2A UPU 1 UPU C2A C2A C 0 1 N N N 28.450 20.461 -50.578 5.787 2.169 -1.049 C2A UPU 2 UPU N3A N3A N 0 1 N N N 29.531 21.211 -50.846 6.163 3.391 -0.630 N3A UPU 3 UPU C4A C4A C 0 1 N N N 29.468 22.564 -50.748 6.090 3.714 0.677 C4A UPU 4 UPU O4A O4A O 0 1 N N N 30.582 23.314 -51.006 6.430 4.819 1.057 O4A UPU 5 UPU C5A C5A C 0 1 N N N 28.268 23.176 -50.406 5.613 2.755 1.603 C5A UPU 6 UPU C6A C6A C 0 1 N N N 27.158 22.358 -50.151 5.241 1.537 1.156 C6A UPU 7 UPU N1A N1A N 0 1 N N N 27.254 21.000 -50.242 5.327 1.251 -0.180 N1A UPU 8 UPU "C1'A" C1*A C 0 0 N N R 26.078 20.142 -49.957 4.919 -0.069 -0.667 "C1'A" UPU 9 UPU "O4'A" O4*A O 0 0 N N N 24.850 20.812 -50.218 3.576 -0.373 -0.231 "O4'A" UPU 10 UPU "C2'A" C2*A C 0 0 N N R 26.069 19.886 -48.455 5.798 -1.171 -0.034 "C2'A" UPU 11 UPU "O2'A" O2*A O 0 0 N N N 25.648 18.543 -48.162 6.838 -1.561 -0.934 "O2'A" UPU 12 UPU "C3'A" C3*A C 0 0 N N S 25.109 20.917 -47.903 4.819 -2.343 0.202 "C3'A" UPU 13 UPU "O3'A" O3*A O 0 0 N N N 24.519 20.568 -46.640 5.224 -3.492 -0.544 "O3'A" UPU 14 UPU "C4'A" C4*A C 0 0 N N R 24.090 20.921 -49.004 3.465 -1.811 -0.316 "C4'A" UPU 15 UPU "C5'A" C5*A C 0 0 N N N 23.182 22.149 -48.903 2.322 -2.310 0.572 "C5'A" UPU 16 UPU "O5'A" O5*A O 0 0 N N N 23.892 23.243 -49.447 1.076 -1.842 0.051 "O5'A" UPU 17 UPU P P P 0 1 N N S 23.321 24.691 -49.835 -0.342 -2.178 0.736 P UPU 18 UPU O1 O1 O 0 1 N N N 22.044 25.033 -49.057 -0.618 -3.762 0.649 O1 UPU 19 UPU O2 O2 O 0 1 N N N 24.561 25.538 -49.630 -0.315 -1.760 2.155 O2 UPU 20 UPU "O3'B" O3*B O 0 0 N N N 22.891 24.593 -51.398 -1.512 -1.386 -0.036 "O3'B" UPU 21 UPU "C3'B" C3*B C 0 0 N N S 23.747 24.050 -52.407 -2.874 -1.394 0.397 "C3'B" UPU 22 UPU "C4'B" C4*B C 0 0 N N R 23.796 24.819 -53.715 -3.789 -1.947 -0.713 "C4'B" UPU 23 UPU "C5'B" C5*B C 0 0 N N N 24.615 26.104 -53.729 -4.518 -3.195 -0.213 "C5'B" UPU 24 UPU "O5'B" O5*B O 0 0 N N N 25.820 25.997 -52.950 -5.273 -3.767 -1.283 "O5'B" UPU 25 UPU "O4'B" O4*B O 0 0 N N N 24.404 23.880 -54.595 -4.742 -0.919 -1.031 "O4'B" UPU 26 UPU "C2'B" C2*B C 0 0 N N R 23.392 22.642 -52.889 -3.379 0.051 0.622 "C2'B" UPU 27 UPU "O2'B" O2*B O 0 0 N N N 22.004 22.475 -53.162 -2.285 0.952 0.802 "O2'B" UPU 28 UPU "C1'B" C1*B C 0 0 N N R 24.142 22.527 -54.209 -4.124 0.345 -0.705 "C1'B" UPU 29 UPU N1B N1B N 0 1 N N N 25.431 21.818 -54.080 -5.141 1.380 -0.508 N1B UPU 30 UPU C2B C2B C 0 1 N N N 25.487 20.463 -54.003 -6.142 1.174 0.367 C2B UPU 31 UPU O2B O2B O 0 1 N N N 24.436 19.787 -54.017 -6.190 0.129 0.986 O2B UPU 32 UPU C6B C6B C 0 1 N N N 26.580 22.541 -54.041 -5.062 2.551 -1.212 C6B UPU 33 UPU C5B C5B C 0 1 N N N 27.824 21.915 -53.914 -5.999 3.506 -1.030 C5B UPU 34 UPU C4B C4B C 0 1 N N N 27.847 20.517 -53.837 -7.049 3.274 -0.110 C4B UPU 35 UPU N3B N3B N 0 1 N N N 26.683 19.807 -53.888 -7.089 2.109 0.568 N3B UPU 36 UPU O4B O4B O 0 1 N N N 28.937 19.923 -53.728 -7.906 4.120 0.072 O4B UPU 37 UPU HN3A HN3A H 0 0 N N N 30.387 20.771 -51.119 6.489 4.043 -1.271 HN3A UPU 38 UPU H5A H5A H 0 1 N N N 28.193 24.251 -50.339 5.548 2.995 2.654 H5A UPU 39 UPU H6A H6A H 0 1 N N N 26.215 22.809 -49.879 4.875 0.793 1.847 H6A UPU 40 UPU "H1'A" H1*A H 0 0 N N N 26.156 19.240 -50.582 4.983 -0.109 -1.754 "H1'A" UPU 41 UPU H2AC CH2A H 0 0 N N N 27.068 19.978 -48.003 6.221 -0.827 0.910 H2AC UPU 42 UPU H2AO OH2A H 0 0 N N N 25.555 18.056 -48.972 7.420 -2.250 -0.587 H2AO UPU 43 UPU H3AC CH3A H 0 0 N N N 25.585 21.881 -47.673 4.756 -2.579 1.264 H3AC UPU 44 UPU H3AO OH3A H 0 0 N N N 25.200 20.491 -45.982 6.096 -3.832 -0.301 H3AO UPU 45 UPU "H4'A" H4*A H 0 0 N N N 23.378 20.084 -48.952 3.306 -2.119 -1.349 "H4'A" UPU 46 UPU "H'A1" 1H*A H 0 0 N N N 22.252 21.981 -49.467 2.323 -3.400 0.587 "H'A1" UPU 47 UPU "H'A2" 2H*A H 0 0 N N N 22.909 22.345 -47.856 2.458 -1.932 1.585 "H'A2" UPU 48 UPU HO1 HO1 H 0 1 N N N 22.246 25.104 -48.131 -0.648 -4.107 -0.254 HO1 UPU 49 UPU H3BC CH3B H 0 0 N N N 24.694 24.090 -51.848 -2.980 -1.984 1.308 H3BC UPU 50 UPU "H4'B" H4*B H 0 0 N N N 22.785 25.169 -53.969 -3.197 -2.189 -1.595 "H4'B" UPU 51 UPU "H'B1" 1H*B H 0 0 N N N 24.891 26.330 -54.769 -3.789 -3.922 0.146 "H'B1" UPU 52 UPU "H'B2" 2H*B H 0 0 N N N 23.998 26.901 -53.287 -5.190 -2.922 0.601 "H'B2" UPU 53 UPU "H5'B" H5*B H 0 0 N N N 26.572 25.973 -53.530 -5.762 -4.564 -1.037 "H5'B" UPU 54 UPU H2BC CH2B H 0 0 N N N 23.649 21.894 -52.124 -4.063 0.097 1.470 H2BC UPU 55 UPU H2BO OH2B H 0 0 N N N 21.522 22.438 -52.344 -2.551 1.871 0.946 H2BO UPU 56 UPU "H1'B" H1*B H 0 0 N N N 23.545 21.954 -54.934 -3.420 0.640 -1.484 "H1'B" UPU 57 UPU H6B H6B H 0 1 N N N 26.532 23.618 -54.109 -4.253 2.711 -1.910 H6B UPU 58 UPU H5B H5B H 0 1 N N N 28.737 22.491 -53.877 -5.948 4.435 -1.579 H5B UPU 59 UPU HN3B HN3B H 0 0 N N N 26.704 18.808 -53.841 -7.803 1.944 1.204 HN3B UPU 60 # 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 UPU O2A C2A DOUB N N 1 UPU C2A N3A SING N N 2 UPU C2A N1A SING N N 3 UPU N3A C4A SING N N 4 UPU N3A HN3A SING N N 5 UPU C4A O4A DOUB N N 6 UPU C4A C5A SING N N 7 UPU C5A C6A DOUB N N 8 UPU C5A H5A SING N N 9 UPU C6A N1A SING N N 10 UPU C6A H6A SING N N 11 UPU N1A "C1'A" SING N N 12 UPU "C1'A" "O4'A" SING N N 13 UPU "C1'A" "C2'A" SING N N 14 UPU "C1'A" "H1'A" SING N N 15 UPU "O4'A" "C4'A" SING N N 16 UPU "C2'A" "O2'A" SING N N 17 UPU "C2'A" "C3'A" SING N N 18 UPU "C2'A" H2AC SING N N 19 UPU "O2'A" H2AO SING N N 20 UPU "C3'A" "C4'A" SING N N 21 UPU "C3'A" "O3'A" SING N N 22 UPU "C3'A" H3AC SING N N 23 UPU "O3'A" H3AO SING N N 24 UPU "C4'A" "C5'A" SING N N 25 UPU "C4'A" "H4'A" SING N N 26 UPU "C5'A" "O5'A" SING N N 27 UPU "C5'A" "H'A1" SING N N 28 UPU "C5'A" "H'A2" SING N N 29 UPU "O5'A" P SING N N 30 UPU P "O3'B" SING N N 31 UPU P O2 DOUB N N 32 UPU P O1 SING N N 33 UPU O1 HO1 SING N N 34 UPU "O3'B" "C3'B" SING N N 35 UPU "C3'B" "C4'B" SING N N 36 UPU "C3'B" "C2'B" SING N N 37 UPU "C3'B" H3BC SING N N 38 UPU "C4'B" "O4'B" SING N N 39 UPU "C4'B" "C5'B" SING N N 40 UPU "C4'B" "H4'B" SING N N 41 UPU "C5'B" "O5'B" SING N N 42 UPU "C5'B" "H'B1" SING N N 43 UPU "C5'B" "H'B2" SING N N 44 UPU "O5'B" "H5'B" SING N N 45 UPU "O4'B" "C1'B" SING N N 46 UPU "C2'B" "C1'B" SING N N 47 UPU "C2'B" "O2'B" SING N N 48 UPU "C2'B" H2BC SING N N 49 UPU "O2'B" H2BO SING N N 50 UPU "C1'B" N1B SING N N 51 UPU "C1'B" "H1'B" SING N N 52 UPU N1B C6B SING N N 53 UPU N1B C2B SING N N 54 UPU C2B O2B DOUB N N 55 UPU C2B N3B SING N N 56 UPU C6B C5B DOUB N N 57 UPU C6B H6B SING N N 58 UPU C5B C4B SING N N 59 UPU C5B H5B SING N N 60 UPU C4B N3B SING N N 61 UPU C4B O4B DOUB N N 62 UPU N3B HN3B SING N N 63 # 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 UPU SMILES ACDLabs 10.04 "O=C1C=CN(C(=O)N1)C4OC(CO)C(OP(=O)(O)OCC3OC(N2C(=O)NC(=O)C=C2)C(O)C3O)C4O" UPU SMILES_CANONICAL CACTVS 3.341 "OC[C@H]1O[C@H]([C@H](O)[C@@H]1O[P@](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O)N4C=CC(=O)NC4=O" UPU SMILES CACTVS 3.341 "OC[CH]1O[CH]([CH](O)[CH]1O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)N4C=CC(=O)NC4=O" UPU SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@](=O)(O)O[C@@H]3[C@H](O[C@H]([C@@H]3O)N4C=CC(=O)NC4=O)CO)O)O" UPU SMILES "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)OC3C(OC(C3O)N4C=CC(=O)NC4=O)CO)O)O" UPU InChI InChI 1.03 "InChI=1S/C18H23N4O14P/c23-5-7-14(13(28)16(34-7)22-4-2-10(25)20-18(22)30)36-37(31,32)33-6-8-11(26)12(27)15(35-8)21-3-1-9(24)19-17(21)29/h1-4,7-8,11-16,23,26-28H,5-6H2,(H,31,32)(H,19,24,29)(H,20,25,30)/t7-,8-,11-,12-,13-,14-,15-,16-/m1/s1" UPU InChIKey InChI 1.03 KXSPLNAXPMVUEC-NCOIDOBVSA-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 UPU "SYSTEMATIC NAME" ACDLabs 10.04 "[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl (2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-4-hydroxy-2-(hydroxymethyl)tetrahydrofuran-3-yl hydrogen (S)-phosphate (non-preferred name)" UPU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl [(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-4-hydroxy-2-(hydroxymethyl)oxolan-3-yl] hydrogen 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 UPU "Create component" 2007-05-24 RCSB UPU "Modify descriptor" 2011-06-04 RCSB #