data_DUA # _chem_comp.id DUA _chem_comp.name "2',5'-dideoxy-5'-(tritylamino)uridine" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H27 N3 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-08-18 _chem_comp.pdbx_modified_date 2012-08-24 _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 469.532 _chem_comp.one_letter_code ? _chem_comp.three_letter_code DUA _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 3T60 _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 DUA N1 N1 N 0 1 N N N 17.726 22.088 -0.378 4.246 0.207 0.413 N1 DUA 1 DUA O1 O1 O 0 1 N N N 16.724 17.786 0.876 1.219 3.849 -0.103 O1 DUA 2 DUA C2 C2 C 0 1 N N N 18.596 23.039 -0.858 5.299 -0.163 1.164 C2 DUA 3 DUA N2 N2 N 0 1 N N N 18.688 18.471 -3.231 -1.058 0.141 0.777 N2 DUA 4 DUA O2 O2 O 0 1 N N N 19.814 22.848 -0.725 5.370 0.206 2.320 O2 DUA 5 DUA N3 N3 N 0 1 N N N 18.070 24.132 -1.364 6.275 -0.937 0.654 N3 DUA 6 DUA C4 C4 C 0 1 N N N 16.725 24.231 -1.486 6.211 -1.355 -0.626 C4 DUA 7 DUA O4 O4 O 0 1 N N N 16.180 25.232 -2.018 7.093 -2.056 -1.089 O4 DUA 8 DUA C5 C5 C 0 1 N N N 15.862 23.265 -1.026 5.108 -0.973 -1.428 C5 DUA 9 DUA C6 C6 C 0 1 N N N 16.396 22.153 -0.497 4.141 -0.201 -0.889 C6 DUA 10 DUA "C1'" "C1'" C 0 1 N N R 18.193 20.831 0.104 3.199 1.050 0.996 "C1'" DUA 11 DUA C17 C17 C 0 1 N N N 18.203 18.739 -4.593 -2.338 -0.240 0.167 C17 DUA 12 DUA C18 C18 C 0 1 Y N N 19.577 18.503 -5.351 -3.195 0.987 -0.010 C18 DUA 13 DUA C19 C19 C 0 1 Y N N 20.459 17.416 -5.051 -2.982 2.099 0.782 C19 DUA 14 DUA "C2'" "C2'" C 0 1 N N N 17.763 20.035 1.284 3.174 2.419 0.289 "C2'" DUA 15 DUA C20 C20 C 0 1 Y N N 21.695 17.111 -5.695 -3.768 3.224 0.620 C20 DUA 16 DUA C21 C21 C 0 1 Y N N 22.149 17.918 -6.728 -4.768 3.237 -0.335 C21 DUA 17 DUA C22 C22 C 0 1 Y N N 21.303 18.965 -7.085 -4.982 2.124 -1.127 C22 DUA 18 DUA C23 C23 C 0 1 Y N N 20.056 19.240 -6.447 -4.191 1.001 -0.969 C23 DUA 19 DUA C24 C24 C 0 1 Y N N 17.866 20.188 -4.732 -2.086 -0.875 -1.176 C24 DUA 20 DUA C25 C25 C 0 1 Y N N 16.637 20.576 -5.312 -1.932 -0.081 -2.298 C25 DUA 21 DUA C26 C26 C 0 1 Y N N 16.191 21.906 -5.438 -1.700 -0.663 -3.530 C26 DUA 22 DUA C27 C27 C 0 1 Y N N 17.000 22.916 -4.930 -1.622 -2.039 -3.641 C27 DUA 23 DUA C28 C28 C 0 1 Y N N 18.216 22.551 -4.328 -1.776 -2.832 -2.519 C28 DUA 24 DUA C29 C29 C 0 1 Y N N 18.641 21.201 -4.195 -2.002 -2.250 -1.286 C29 DUA 25 DUA "C3'" "C3'" C 0 1 N N S 17.113 19.024 0.305 1.736 2.528 -0.275 "C3'" DUA 26 DUA C30 C30 C 0 1 Y N N 17.427 17.748 -5.447 -3.048 -1.224 1.062 C30 DUA 27 DUA C31 C31 C 0 1 Y N N 16.745 16.714 -4.804 -2.339 -1.918 2.024 C31 DUA 28 DUA C32 C32 C 0 1 Y N N 15.965 15.830 -5.525 -2.990 -2.821 2.844 C32 DUA 29 DUA C33 C33 C 0 1 Y N N 15.835 16.005 -6.911 -4.350 -3.029 2.702 C33 DUA 30 DUA C34 C34 C 0 1 Y N N 16.469 17.039 -7.608 -5.058 -2.334 1.740 C34 DUA 31 DUA C35 C35 C 0 1 Y N N 17.243 17.893 -6.848 -4.408 -1.427 0.923 C35 DUA 32 DUA "C4'" "C4'" C 0 1 N N R 18.148 18.747 -0.788 0.964 1.513 0.606 "C4'" DUA 33 DUA "O4'" "O4'" O 0 1 N N N 18.930 19.927 -0.754 1.913 0.441 0.795 "O4'" DUA 34 DUA "C5'" "C5'" C 0 1 N N N 17.641 18.466 -2.165 -0.283 1.006 -0.122 "C5'" DUA 35 DUA HO1 HO1 H 0 1 N N N 16.338 17.235 0.205 1.725 4.532 -0.563 HO1 DUA 36 DUA HN2 HN2 H 0 1 N N N 19.116 17.567 -3.236 -1.201 0.585 1.672 HN2 DUA 37 DUA H5 H5 H 0 1 N N N 14.792 23.396 -1.088 5.040 -1.299 -2.455 H5 DUA 38 DUA H6 H6 H 0 1 N N N 15.769 21.334 -0.177 3.292 0.100 -1.485 H6 DUA 39 DUA "H1'" "H1'" H 0 1 N N N 18.555 21.762 0.564 3.384 1.187 2.062 "H1'" DUA 40 DUA H19 H19 H 0 1 N N N 20.156 16.756 -4.251 -2.201 2.089 1.528 H19 DUA 41 DUA "H2'" "H2'" H 0 1 N N N 18.551 19.656 1.951 3.366 3.220 1.002 "H2'" DUA 42 DUA "H2'A" "H2'A" H 0 0 N N N 17.102 20.529 2.011 3.905 2.444 -0.519 "H2'A" DUA 43 DUA H20 H20 H 0 1 N N N 22.274 16.256 -5.380 -3.602 4.093 1.239 H20 DUA 44 DUA H21 H21 H 0 1 N N N 23.094 17.746 -7.222 -5.383 4.116 -0.461 H21 DUA 45 DUA H22 H22 H 0 1 N N N 21.610 19.609 -7.896 -5.763 2.134 -1.872 H22 DUA 46 DUA H23 H23 H 0 1 N N N 19.453 20.052 -6.824 -4.358 0.132 -1.588 H23 DUA 47 DUA H25 H25 H 0 1 N N N 15.992 19.795 -5.686 -1.993 0.994 -2.211 H25 DUA 48 DUA H26 H26 H 0 1 N N N 15.249 22.134 -5.915 -1.581 -0.043 -4.406 H26 DUA 49 DUA H27 H27 H 0 1 N N N 16.702 23.952 -4.996 -1.442 -2.494 -4.604 H27 DUA 50 DUA H28 H28 H 0 1 N N N 18.858 23.333 -3.949 -1.715 -3.907 -2.606 H28 DUA 51 DUA H29 H29 H 0 1 N N N 19.561 20.968 -3.679 -2.118 -2.870 -0.410 H29 DUA 52 DUA "H3'" "H3'" H 0 1 N N N 16.181 19.480 -0.059 1.706 2.234 -1.324 "H3'" DUA 53 DUA H31 H31 H 0 1 N N N 16.828 16.604 -3.733 -1.278 -1.756 2.135 H31 DUA 54 DUA H32 H32 H 0 1 N N N 15.462 15.014 -5.028 -2.437 -3.364 3.596 H32 DUA 55 DUA H33 H33 H 0 1 N N N 15.219 15.311 -7.464 -4.858 -3.734 3.343 H33 DUA 56 DUA H34 H34 H 0 1 N N N 16.360 17.162 -8.675 -6.120 -2.497 1.628 H34 DUA 57 DUA H35 H35 H 0 1 N N N 17.735 18.716 -7.345 -4.962 -0.884 0.171 H35 DUA 58 DUA "H4'" "H4'" H 0 1 N N N 18.676 17.805 -0.579 0.695 1.961 1.562 "H4'" DUA 59 DUA "H5'" "H5'" H 0 1 N N N 16.904 19.243 -2.416 0.016 0.439 -1.004 "H5'" DUA 60 DUA "H5'A" "H5'A" H 0 0 N N N 17.178 17.468 -2.155 -0.895 1.855 -0.427 "H5'A" DUA 61 DUA HN3 HN3 H 0 1 N N N 18.659 24.885 -1.657 7.027 -1.195 1.209 HN3 DUA 62 # 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 DUA C2 N1 SING N N 1 DUA C6 N1 SING N N 2 DUA N1 "C1'" SING N N 3 DUA "C3'" O1 SING N N 4 DUA O1 HO1 SING N N 5 DUA N3 C2 SING N N 6 DUA C2 O2 DOUB N N 7 DUA C17 N2 SING N N 8 DUA N2 "C5'" SING N N 9 DUA N2 HN2 SING N N 10 DUA C4 N3 SING N N 11 DUA O4 C4 DOUB N N 12 DUA C4 C5 SING N N 13 DUA C5 C6 DOUB N N 14 DUA C5 H5 SING N N 15 DUA C6 H6 SING N N 16 DUA "O4'" "C1'" SING N N 17 DUA "C1'" "C2'" SING N N 18 DUA "C1'" "H1'" SING N N 19 DUA C30 C17 SING N N 20 DUA C18 C17 SING N N 21 DUA C24 C17 SING N N 22 DUA C23 C18 DOUB Y N 23 DUA C18 C19 SING Y N 24 DUA C20 C19 DOUB Y N 25 DUA C19 H19 SING N N 26 DUA "C3'" "C2'" SING N N 27 DUA "C2'" "H2'" SING N N 28 DUA "C2'" "H2'A" SING N N 29 DUA C21 C20 SING Y N 30 DUA C20 H20 SING N N 31 DUA C22 C21 DOUB Y N 32 DUA C21 H21 SING N N 33 DUA C22 C23 SING Y N 34 DUA C22 H22 SING N N 35 DUA C23 H23 SING N N 36 DUA C25 C24 DOUB Y N 37 DUA C24 C29 SING Y N 38 DUA C26 C25 SING Y N 39 DUA C25 H25 SING N N 40 DUA C26 C27 DOUB Y N 41 DUA C26 H26 SING N N 42 DUA C27 C28 SING Y N 43 DUA C27 H27 SING N N 44 DUA C28 C29 DOUB Y N 45 DUA C28 H28 SING N N 46 DUA C29 H29 SING N N 47 DUA "C4'" "C3'" SING N N 48 DUA "C3'" "H3'" SING N N 49 DUA C35 C30 DOUB Y N 50 DUA C30 C31 SING Y N 51 DUA C32 C31 DOUB Y N 52 DUA C31 H31 SING N N 53 DUA C33 C32 SING Y N 54 DUA C32 H32 SING N N 55 DUA C34 C33 DOUB Y N 56 DUA C33 H33 SING N N 57 DUA C34 C35 SING Y N 58 DUA C34 H34 SING N N 59 DUA C35 H35 SING N N 60 DUA "C5'" "C4'" SING N N 61 DUA "C4'" "O4'" SING N N 62 DUA "C4'" "H4'" SING N N 63 DUA "C5'" "H5'" SING N N 64 DUA "C5'" "H5'A" SING N N 65 DUA N3 HN3 SING N N 66 # 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 DUA SMILES ACDLabs 12.01 "O=C1NC(=O)N(C=C1)C2OC(C(O)C2)CNC(c3ccccc3)(c4ccccc4)c5ccccc5" DUA InChI InChI 1.03 "InChI=1S/C28H27N3O4/c32-23-18-26(31-17-16-25(33)30-27(31)34)35-24(23)19-29-28(20-10-4-1-5-11-20,21-12-6-2-7-13-21)22-14-8-3-9-15-22/h1-17,23-24,26,29,32H,18-19H2,(H,30,33,34)/t23-,24+,26+/m0/s1" DUA InChIKey InChI 1.03 TUZNCXRMWDUVNX-BFLUCZKCSA-N DUA SMILES_CANONICAL CACTVS 3.370 "O[C@H]1C[C@@H](O[C@@H]1CNC(c2ccccc2)(c3ccccc3)c4ccccc4)N5C=CC(=O)NC5=O" DUA SMILES CACTVS 3.370 "O[CH]1C[CH](O[CH]1CNC(c2ccccc2)(c3ccccc3)c4ccccc4)N5C=CC(=O)NC5=O" DUA SMILES_CANONICAL "OpenEye OEToolkits" 1.7.2 "c1ccc(cc1)C(c2ccccc2)(c3ccccc3)NC[C@@H]4[C@H](C[C@@H](O4)N5C=CC(=O)NC5=O)O" DUA SMILES "OpenEye OEToolkits" 1.7.2 "c1ccc(cc1)C(c2ccccc2)(c3ccccc3)NCC4C(CC(O4)N5C=CC(=O)NC5=O)O" # 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 DUA "SYSTEMATIC NAME" ACDLabs 12.01 "2',5'-dideoxy-5'-(tritylamino)uridine" DUA "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.2 "1-[(2R,4S,5R)-4-oxidanyl-5-[[(triphenylmethyl)amino]methyl]oxolan-2-yl]pyrimidine-2,4-dione" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site DUA "Create component" 2011-08-18 RCSB DUA "Initial release" 2012-08-24 RCSB #