data_WS3 # _chem_comp.id WS3 _chem_comp.name "5'-deoxy-5'-[({6-[(alpha-D-galactopyranosyloxy)methyl]pyridin-2-yl}carbonyl)amino]uridine" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C22 H28 N4 O12" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2013-08-15 _chem_comp.pdbx_modified_date 2013-09-06 _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 540.477 _chem_comp.one_letter_code ? _chem_comp.three_letter_code WS3 _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 4KC4 _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 WS3 O4 O4 O 0 1 N N N 17.971 23.719 11.272 -7.213 3.907 -2.322 O4 WS3 1 WS3 C4 C4 C 0 1 N N N 17.504 23.630 10.112 -6.678 3.078 -1.607 C4 WS3 2 WS3 N3 N3 N 0 1 N N N 18.152 24.220 9.096 -6.200 3.429 -0.397 N3 WS3 3 WS3 C2 C2 C 0 1 N N N 17.681 24.146 7.842 -5.609 2.512 0.391 C2 WS3 4 WS3 O2 O2 O 0 1 N N N 18.298 24.708 6.924 -5.182 2.844 1.481 O2 WS3 5 WS3 C5 C5 C 0 1 N N N 16.328 22.917 9.868 -6.558 1.734 -2.039 C5 WS3 6 WS3 C6 C6 C 0 1 N N N 15.832 22.840 8.565 -5.961 0.835 -1.227 C6 WS3 7 WS3 N1 N1 N 0 1 N N N 16.492 23.436 7.550 -5.483 1.234 -0.009 N1 WS3 8 WS3 C11 C11 C 0 1 N N R 16.000 23.388 6.159 -4.835 0.258 0.871 C11 WS3 9 WS3 O44 O44 O 0 1 N N N 14.680 22.830 6.112 -3.789 -0.441 0.163 O44 WS3 10 WS3 C22 C22 C 0 1 N N R 16.883 22.509 5.272 -5.838 -0.842 1.285 C22 WS3 11 WS3 O22 O22 O 0 1 N N N 16.927 22.999 3.917 -6.374 -0.570 2.582 O22 WS3 12 WS3 C33 C33 C 0 1 N N S 16.138 21.199 5.274 -4.990 -2.133 1.310 C33 WS3 13 WS3 O33 O33 O 0 1 N N N 16.482 20.425 4.121 -4.975 -2.697 2.623 O33 WS3 14 WS3 C44 C44 C 0 1 N N R 14.683 21.660 5.285 -3.573 -1.659 0.908 C44 WS3 15 WS3 C55 C55 C 0 1 N N N 13.648 20.654 5.794 -2.890 -2.708 0.029 C55 WS3 16 WS3 N11 N11 N 0 1 N N N 14.108 19.934 6.971 -1.510 -2.296 -0.241 N11 WS3 17 WS3 C12 C12 C 0 1 N N N 14.707 18.748 6.862 -0.711 -3.071 -1.001 C12 WS3 18 WS3 O13 O13 O 0 1 N N N 15.127 18.330 5.781 -1.135 -4.112 -1.462 O13 WS3 19 WS3 C14 C14 C 0 1 Y N N 14.880 17.901 8.090 0.684 -2.654 -1.274 C14 WS3 20 WS3 C15 C15 C 0 1 Y N N 14.429 18.341 9.339 1.505 -3.460 -2.060 C15 WS3 21 WS3 C16 C16 C 0 1 Y N N 14.607 17.524 10.456 2.807 -3.056 -2.307 C16 WS3 22 WS3 C17 C17 C 0 1 Y N N 15.232 16.286 10.301 3.244 -1.860 -1.759 C17 WS3 23 WS3 C18 C18 C 0 1 Y N N 15.668 15.882 9.036 2.373 -1.109 -0.987 C18 WS3 24 WS3 N19 N19 N 0 1 Y N N 15.484 16.694 7.967 1.140 -1.513 -0.772 N19 WS3 25 WS3 C20 C20 C 0 1 N N N 16.351 14.543 8.844 2.843 0.192 -0.389 C20 WS3 26 WS3 "O1'" "O1'" O 0 1 N N N 15.693 13.567 9.644 4.203 0.423 -0.761 "O1'" WS3 27 WS3 "C1'" "C1'" C 0 1 N N S 15.922 12.209 9.252 4.749 1.638 -0.243 "C1'" WS3 28 WS3 "O5'" "O5'" O 0 1 N N N 16.212 12.075 7.848 4.918 1.520 1.171 "O5'" WS3 29 WS3 "C5'" "C5'" C 0 1 N N R 17.566 12.071 7.387 5.773 0.446 1.569 "C5'" WS3 30 WS3 "C6'" "C6'" C 0 1 N N N 17.556 11.559 5.946 5.857 0.399 3.096 "C6'" WS3 31 WS3 "O6'" "O6'" O 0 1 N N N 18.750 10.817 5.657 4.572 0.078 3.634 "O6'" WS3 32 WS3 "C4'" "C4'" C 0 1 N N R 18.443 11.185 8.253 7.172 0.667 0.988 "C4'" WS3 33 WS3 "O4'" "O4'" O 0 1 N N N 17.990 9.829 8.156 7.723 1.876 1.516 "O4'" WS3 34 WS3 "C3'" "C3'" C 0 1 N N S 18.369 11.648 9.695 7.072 0.774 -0.537 "C3'" WS3 35 WS3 "O3'" "O3'" O 0 1 N N N 19.181 10.804 10.514 8.363 1.053 -1.082 "O3'" WS3 36 WS3 "C2'" "C2'" C 0 1 N N R 16.937 11.558 10.191 6.107 1.907 -0.896 "C2'" WS3 37 WS3 "O2'" "O2'" O 0 1 N N N 16.839 12.189 11.471 5.950 1.969 -2.316 "O2'" WS3 38 WS3 H1 H1 H 0 1 N N N 18.998 24.722 9.276 -6.281 4.347 -0.093 H1 WS3 39 WS3 H2 H2 H 0 1 N N N 15.807 22.430 10.679 -6.939 1.433 -3.003 H2 WS3 40 WS3 H3 H3 H 0 1 N N N 14.917 22.301 8.369 -5.860 -0.194 -1.539 H3 WS3 41 WS3 H4 H4 H 0 1 N N N 15.990 24.406 5.743 -4.431 0.754 1.753 H4 WS3 42 WS3 H5 H5 H 0 1 N N N 17.887 22.397 5.707 -6.639 -0.925 0.550 H5 WS3 43 WS3 H6 H6 H 0 1 N N N 17.394 23.826 3.894 -6.964 -1.259 2.916 H6 WS3 44 WS3 H7 H7 H 0 1 N N N 16.357 20.646 6.199 -5.371 -2.855 0.587 H7 WS3 45 WS3 H8 H8 H 0 1 N N N 16.186 19.530 4.240 -5.848 -2.956 2.950 H8 WS3 46 WS3 H9 H9 H 0 1 N N N 14.407 21.941 4.258 -2.973 -1.461 1.796 H9 WS3 47 WS3 H10 H10 H 0 1 N N N 12.725 21.195 6.049 -2.887 -3.669 0.544 H10 WS3 48 WS3 H11 H11 H 0 1 N N N 13.438 19.928 4.995 -3.431 -2.802 -0.912 H11 WS3 49 WS3 H12 H12 H 0 1 N N N 13.973 20.335 7.877 -1.171 -1.464 0.127 H12 WS3 50 WS3 H13 H13 H 0 1 N N N 13.948 19.303 9.438 1.131 -4.386 -2.471 H13 WS3 51 WS3 H14 H14 H 0 1 N N N 14.265 17.846 11.429 3.467 -3.660 -2.913 H14 WS3 52 WS3 H15 H15 H 0 1 N N N 15.378 15.642 11.156 4.253 -1.517 -1.933 H15 WS3 53 WS3 H16 H16 H 0 1 N N N 16.296 14.250 7.785 2.222 1.008 -0.760 H16 WS3 54 WS3 H17 H17 H 0 1 N N N 17.405 14.620 9.149 2.766 0.142 0.697 H17 WS3 55 WS3 H18 H18 H 0 1 N N N 14.978 11.672 9.426 4.071 2.463 -0.460 H18 WS3 56 WS3 H19 H19 H 0 1 N N N 17.972 13.093 7.397 5.370 -0.496 1.197 H19 WS3 57 WS3 H20 H20 H 0 1 N N N 17.490 12.416 5.260 6.577 -0.362 3.397 H20 WS3 58 WS3 H21 H21 H 0 1 N N N 16.683 10.906 5.802 6.176 1.370 3.473 H21 WS3 59 WS3 H22 H22 H 0 1 N N N 18.722 10.509 4.759 4.550 0.031 4.599 H22 WS3 60 WS3 H23 H23 H 0 1 N N N 19.484 11.262 7.905 7.814 -0.173 1.253 H23 WS3 61 WS3 H24 H24 H 0 1 N N N 18.537 9.272 8.697 8.610 2.079 1.189 H24 WS3 62 WS3 H25 H25 H 0 1 N N N 18.710 12.692 9.759 6.699 -0.166 -0.944 H25 WS3 63 WS3 H26 H26 H 0 1 N N N 19.133 11.096 11.417 8.374 1.134 -2.046 H26 WS3 64 WS3 H27 H27 H 0 1 N N N 16.675 10.494 10.290 6.505 2.854 -0.532 H27 WS3 65 WS3 H28 H28 H 0 1 N N N 17.465 11.795 12.068 5.347 2.663 -2.615 H28 WS3 66 # 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 WS3 O22 C22 SING N N 1 WS3 O33 C33 SING N N 2 WS3 C22 C33 SING N N 3 WS3 C22 C11 SING N N 4 WS3 C33 C44 SING N N 5 WS3 C44 C55 SING N N 6 WS3 C44 O44 SING N N 7 WS3 "O6'" "C6'" SING N N 8 WS3 O13 C12 DOUB N N 9 WS3 C55 N11 SING N N 10 WS3 "C6'" "C5'" SING N N 11 WS3 O44 C11 SING N N 12 WS3 C11 N1 SING N N 13 WS3 C12 N11 SING N N 14 WS3 C12 C14 SING N N 15 WS3 O2 C2 DOUB N N 16 WS3 "C5'" "O5'" SING N N 17 WS3 "C5'" "C4'" SING N N 18 WS3 N1 C2 SING N N 19 WS3 N1 C6 SING N N 20 WS3 C2 N3 SING N N 21 WS3 "O5'" "C1'" SING N N 22 WS3 N19 C14 DOUB Y N 23 WS3 N19 C18 SING Y N 24 WS3 C14 C15 SING Y N 25 WS3 "O4'" "C4'" SING N N 26 WS3 "C4'" "C3'" SING N N 27 WS3 C6 C5 DOUB N N 28 WS3 C20 C18 SING N N 29 WS3 C20 "O1'" SING N N 30 WS3 C18 C17 DOUB Y N 31 WS3 N3 C4 SING N N 32 WS3 "C1'" "O1'" SING N N 33 WS3 "C1'" "C2'" SING N N 34 WS3 C15 C16 DOUB Y N 35 WS3 "C3'" "C2'" SING N N 36 WS3 "C3'" "O3'" SING N N 37 WS3 C5 C4 SING N N 38 WS3 C4 O4 DOUB N N 39 WS3 "C2'" "O2'" SING N N 40 WS3 C17 C16 SING Y N 41 WS3 N3 H1 SING N N 42 WS3 C5 H2 SING N N 43 WS3 C6 H3 SING N N 44 WS3 C11 H4 SING N N 45 WS3 C22 H5 SING N N 46 WS3 O22 H6 SING N N 47 WS3 C33 H7 SING N N 48 WS3 O33 H8 SING N N 49 WS3 C44 H9 SING N N 50 WS3 C55 H10 SING N N 51 WS3 C55 H11 SING N N 52 WS3 N11 H12 SING N N 53 WS3 C15 H13 SING N N 54 WS3 C16 H14 SING N N 55 WS3 C17 H15 SING N N 56 WS3 C20 H16 SING N N 57 WS3 C20 H17 SING N N 58 WS3 "C1'" H18 SING N N 59 WS3 "C5'" H19 SING N N 60 WS3 "C6'" H20 SING N N 61 WS3 "C6'" H21 SING N N 62 WS3 "O6'" H22 SING N N 63 WS3 "C4'" H23 SING N N 64 WS3 "O4'" H24 SING N N 65 WS3 "C3'" H25 SING N N 66 WS3 "O3'" H26 SING N N 67 WS3 "C2'" H27 SING N N 68 WS3 "O2'" H28 SING N N 69 # 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 WS3 SMILES ACDLabs 12.01 "O=C1C=CN(C(=O)N1)C2OC(C(O)C2O)CNC(=O)c3nc(ccc3)COC4OC(C(O)C(O)C4O)CO" WS3 InChI InChI 1.03 "InChI=1S/C22H28N4O12/c27-7-12-15(30)16(31)18(33)21(38-12)36-8-9-2-1-3-10(24-9)19(34)23-6-11-14(29)17(32)20(37-11)26-5-4-13(28)25-22(26)35/h1-5,11-12,14-18,20-21,27,29-33H,6-8H2,(H,23,34)(H,25,28,35)/t11-,12-,14-,15+,16+,17-,18-,20-,21+/m1/s1" WS3 InChIKey InChI 1.03 KPOTWZYLDCHCIG-DSVOXYOZSA-N WS3 SMILES_CANONICAL CACTVS 3.385 "OC[C@H]1O[C@H](OCc2cccc(n2)C(=O)NC[C@H]3O[C@H]([C@H](O)[C@@H]3O)N4C=CC(=O)NC4=O)[C@H](O)[C@@H](O)[C@H]1O" WS3 SMILES CACTVS 3.385 "OC[CH]1O[CH](OCc2cccc(n2)C(=O)NC[CH]3O[CH]([CH](O)[CH]3O)N4C=CC(=O)NC4=O)[CH](O)[CH](O)[CH]1O" WS3 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "c1cc(nc(c1)C(=O)NC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)CO[C@@H]4[C@@H]([C@H]([C@H]([C@H](O4)CO)O)O)O" WS3 SMILES "OpenEye OEToolkits" 1.7.6 "c1cc(nc(c1)C(=O)NCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O)COC4C(C(C(C(O4)CO)O)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 WS3 "SYSTEMATIC NAME" ACDLabs 12.01 "5'-deoxy-5'-[({6-[(alpha-D-galactopyranosyloxy)methyl]pyridin-2-yl}carbonyl)amino]uridine" WS3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "N-[[(2R,3S,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-6-[[(2S,3R,4S,5R,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]pyridine-2-carboxamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site WS3 "Create component" 2013-08-15 RCSB WS3 "Initial release" 2013-09-11 RCSB #