data_2TU # _chem_comp.id 2TU _chem_comp.name "1-(beta-D-ribofuranosyl)-2-thioxo-2,3-dihydropyrimidin-4(1H)-one" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C9 H12 N2 O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms 2-thiouridine _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-06-24 _chem_comp.pdbx_modified_date 2021-03-01 _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 260.267 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 2TU _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 3SFG _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 2TU N1 N1 N 0 1 N N N 45.762 0.960 25.908 -0.882 0.159 -0.004 N1 2TU 1 2TU C2 C2 C 0 1 N N N 45.374 2.307 25.859 -1.919 -0.533 0.503 C2 2TU 2 2TU S2 S2 S 0 1 N N N 46.376 3.434 24.988 -1.624 -1.972 1.382 S2 2TU 3 2TU N3 N3 N 0 1 N N N 44.232 2.693 26.460 -3.184 -0.109 0.329 N3 2TU 4 2TU C4 C4 C 0 1 N N N 43.470 1.793 27.130 -3.434 1.022 -0.361 C4 2TU 5 2TU O4 O4 O 0 1 N N N 42.420 2.163 27.701 -4.578 1.407 -0.519 O4 2TU 6 2TU C5 C5 C 0 1 N N N 43.855 0.449 27.175 -2.352 1.760 -0.900 C5 2TU 7 2TU C6 C6 C 0 1 N N N 45.026 0.048 26.540 -1.092 1.312 -0.710 C6 2TU 8 2TU "C1'" "C1'" C 0 1 N N R 46.997 0.597 25.203 0.485 -0.324 0.207 "C1'" 2TU 9 2TU "C2'" "C2'" C 0 1 N N R 47.671 -0.662 25.733 1.136 -0.725 -1.141 "C2'" 2TU 10 2TU "O2'" "O2'" O 0 1 N N N 48.485 -0.378 26.846 0.817 -2.077 -1.478 "O2'" 2TU 11 2TU "C3'" "C3'" C 0 1 N N S 48.421 -1.147 24.491 2.645 -0.576 -0.829 "C3'" 2TU 12 2TU "O3'" "O3'" O 0 1 N N N 49.622 -0.397 24.332 3.216 -1.844 -0.500 "O3'" 2TU 13 2TU "C4'" "C4'" C 0 1 N N R 47.461 -0.792 23.360 2.688 0.367 0.389 "C4'" 2TU 14 2TU "O4'" "O4'" O 0 1 N N N 46.678 0.333 23.842 1.332 0.743 0.686 "O4'" 2TU 15 2TU "C5'" "C5'" C 0 1 N N N 46.524 -1.906 22.935 3.511 1.613 0.054 "C5'" 2TU 16 2TU "O5'" "O5'" O 0 1 N N N 45.885 -1.621 21.691 3.643 2.425 1.222 "O5'" 2TU 17 2TU HN3 HN3 H 0 1 N N N 43.944 3.649 26.412 -3.920 -0.619 0.701 HN3 2TU 18 2TU H5 H5 H 0 1 N N N 43.247 -0.273 27.700 -2.531 2.668 -1.456 H5 2TU 19 2TU H6 H6 H 0 1 N N N 45.333 -0.987 26.559 -0.254 1.861 -1.114 H6 2TU 20 2TU "H1'" "H1'" H 0 1 N N N 47.686 1.443 25.345 0.491 -1.163 0.902 "H1'" 2TU 21 2TU "H2'" "H2'" H 0 1 N N N 46.994 -1.431 26.132 0.834 -0.045 -1.937 "H2'" 2TU 22 2TU "HO2'" "HO2'" H 0 0 N N N 48.891 -1.179 27.154 1.202 -2.375 -2.314 "HO2'" 2TU 23 2TU "H3'" "H3'" H 0 1 N N N 48.695 -2.212 24.532 3.168 -0.132 -1.676 "H3'" 2TU 24 2TU "HO3'" "HO3'" H 0 0 N N N 50.085 -0.700 23.560 4.161 -1.809 -0.295 "HO3'" 2TU 25 2TU "H4'" "H4'" H 0 1 N N N 48.058 -0.573 22.462 3.125 -0.150 1.243 "H4'" 2TU 26 2TU "H5'" "H5'" H 0 1 N N N 47.106 -2.833 22.827 4.500 1.312 -0.293 "H5'" 2TU 27 2TU "H5'A" "H5'A" H 0 0 N N N 45.751 -2.029 23.708 3.009 2.181 -0.729 "H5'A" 2TU 28 2TU "HO5'" "HO5'" H 0 0 N N N 45.308 -2.339 21.459 4.154 3.234 1.083 "HO5'" 2TU 29 # # 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 2TU N1 C2 SING N N 1 2TU N1 C6 SING N N 2 2TU N1 "C1'" SING N N 3 2TU C2 S2 DOUB N N 4 2TU C2 N3 SING N N 5 2TU N3 C4 SING N N 6 2TU C4 O4 DOUB N N 7 2TU C4 C5 SING N N 8 2TU C5 C6 DOUB N N 9 2TU "C1'" "C2'" SING N N 10 2TU "C1'" "O4'" SING N N 11 2TU "C2'" "O2'" SING N N 12 2TU "C2'" "C3'" SING N N 13 2TU "C3'" "O3'" SING N N 14 2TU "C3'" "C4'" SING N N 15 2TU "C4'" "O4'" SING N N 16 2TU "C4'" "C5'" SING N N 17 2TU "C5'" "O5'" SING N N 18 2TU N3 HN3 SING N N 19 2TU C5 H5 SING N N 20 2TU C6 H6 SING N N 21 2TU "C1'" "H1'" SING N N 22 2TU "C2'" "H2'" SING N N 23 2TU "O2'" "HO2'" SING N N 24 2TU "C3'" "H3'" SING N N 25 2TU "O3'" "HO3'" SING N N 26 2TU "C4'" "H4'" SING N N 27 2TU "C5'" "H5'" SING N N 28 2TU "C5'" "H5'A" SING N N 29 2TU "O5'" "HO5'" SING N N 30 # # 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 2TU SMILES ACDLabs 12.01 "O=C1NC(=S)N(C=C1)C2OC(C(O)C2O)CO" 2TU InChI InChI 1.03 "InChI=1S/C9H12N2O5S/c12-3-4-6(14)7(15)8(16-4)11-2-1-5(13)10-9(11)17/h1-2,4,6-8,12,14-15H,3H2,(H,10,13,17)/t4-,6-,7-,8-/m1/s1" 2TU InChIKey InChI 1.03 GJTBSTBJLVYKAU-XVFCMESISA-N 2TU SMILES_CANONICAL CACTVS 3.370 "OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)N2C=CC(=O)NC2=S" 2TU SMILES CACTVS 3.370 "OC[CH]1O[CH]([CH](O)[CH]1O)N2C=CC(=O)NC2=S" 2TU SMILES_CANONICAL "OpenEye OEToolkits" 1.7.2 "C1=CN(C(=S)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)CO)O)O" 2TU SMILES "OpenEye OEToolkits" 1.7.2 "C1=CN(C(=S)NC1=O)C2C(C(C(O2)CO)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 2TU "SYSTEMATIC NAME" ACDLabs 12.01 "1-(beta-D-ribofuranosyl)-2-thioxo-2,3-dihydropyrimidin-4(1H)-one" 2TU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.2 "1-[(2R,3R,4S,5R)-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]-2-sulfanylidene-pyrimidin-4-one" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 2TU "Create component" 2011-06-24 PDBJ 2TU "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id 2TU _pdbx_chem_comp_synonyms.name 2-thiouridine _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##