data_70U # _chem_comp.id 70U _chem_comp.name "5-(O-METHYLACETO)-2-THIO-2-DEOXY-URIDINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C12 H17 N2 O10 P S" _chem_comp.mon_nstd_parent_comp_id U _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2000-08-08 _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 412.310 _chem_comp.one_letter_code U _chem_comp.three_letter_code 70U _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 1FIR _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 70U N1 N1 N 0 1 N N N 28.522 17.347 -7.005 -0.889 -0.033 1.268 N1 70U 1 70U C2 C2 C 0 1 N N N 27.774 16.396 -6.338 -0.912 1.306 1.154 C2 70U 2 70U S2 S2 S 0 1 N N N 26.866 15.744 -6.877 -1.222 2.018 -0.371 S2 70U 3 70U N3 N3 N 0 1 N N N 28.118 16.241 -5.007 -0.696 2.096 2.222 N3 70U 4 70U C4 C4 C 0 1 N N N 29.092 16.949 -4.312 -0.456 1.551 3.432 C4 70U 5 70U O4 O4 O 0 1 N N N 29.277 16.724 -3.125 -0.260 2.264 4.400 O4 70U 6 70U C5 C5 C 0 1 N N N 29.816 17.938 -5.092 -0.423 0.142 3.565 C5 70U 7 70U C6 C6 C 0 1 N N N 29.511 18.061 -6.378 -0.644 -0.625 2.477 C6 70U 8 70U C5M C5M C 0 1 N N N 30.838 18.810 -4.434 -0.151 -0.492 4.905 C5M 70U 9 70U C8 C8 C 0 1 N N N 31.818 18.069 -3.567 1.331 -0.703 5.069 C8 70U 10 70U O8 O8 O 0 1 N N N 31.556 17.876 -2.360 2.089 -0.373 4.189 O8 70U 11 70U O9 O9 O 0 1 N N N 33.018 17.619 -4.174 1.809 -1.259 6.194 O9 70U 12 70U C9 C9 C 0 1 N N N 32.759 16.231 -4.315 3.238 -1.463 6.352 C9 70U 13 70U "C1'" C1* C 0 1 N N R 28.252 17.621 -8.408 -1.129 -0.866 0.088 "C1'" 70U 14 70U "O2'" O2* O 0 1 N N N 26.327 17.789 -9.818 -3.485 -1.505 -0.098 "O2'" 70U 15 70U "C2'" C2* C 0 1 N N R 26.869 18.234 -8.595 -2.512 -0.549 -0.522 "C2'" 70U 16 70U "O3'" O3* O 0 1 N N N 26.229 20.463 -9.288 -3.100 -1.676 -2.612 "O3'" 70U 17 70U "C3'" C3* C 0 1 N N S 27.192 19.721 -8.563 -2.280 -0.651 -2.048 "C3'" 70U 18 70U "C4'" C4* C 0 1 N N R 28.513 19.766 -9.295 -0.785 -1.021 -2.176 "C4'" 70U 19 70U "O4'" O4* O 0 1 N N N 29.202 18.577 -8.845 -0.181 -0.547 -0.953 "O4'" 70U 20 70U "C5'" C5* C 0 1 N N N 29.363 20.980 -9.044 -0.162 -0.321 -3.385 "C5'" 70U 21 70U "O5'" O5* O 0 1 N N N 29.627 21.132 -7.660 1.233 -0.620 -3.442 "O5'" 70U 22 70U P P P 0 1 N N N 30.465 22.388 -7.150 1.821 0.145 -4.731 P 70U 23 70U OP1 O1P O 0 1 N N N 30.106 23.510 -8.058 1.601 1.601 -4.582 OP1 70U 24 70U OP2 O2P O 0 1 N N N 31.899 22.033 -6.950 3.399 -0.149 -4.856 OP2 70U 25 70U OP3 O3P O 0 1 N Y N 29.886 22.686 -5.684 1.070 -0.378 -6.055 OP3 70U 26 70U HN3 HN3 H 0 1 N N N 27.601 15.533 -4.485 -0.716 3.060 2.122 HN3 70U 27 70U H6 H6 H 0 1 N N N 30.106 18.790 -6.952 -0.627 -1.702 2.560 H6 70U 28 70U H71 1H5M H 0 1 N N N 31.376 19.421 -5.195 -0.664 -1.452 4.963 H71 70U 29 70U H72 2H5M H 0 1 N N N 30.341 19.622 -3.853 -0.515 0.162 5.697 H72 70U 30 70U H91 1H9 H 0 1 N N N 33.702 15.877 -4.792 3.435 -1.921 7.321 H91 70U 31 70U H92 2H9 H 0 1 N N N 32.473 15.702 -3.375 3.602 -2.117 5.559 H92 70U 32 70U H93 3H9 H 0 1 N N N 31.822 15.974 -4.863 3.751 -0.502 6.294 H93 70U 33 70U "H1'" H1* H 0 1 N N N 28.307 16.666 -8.981 -1.063 -1.922 0.349 "H1'" 70U 34 70U "HO2'" 2HO* H 0 0 N N N 25.465 18.171 -9.934 -4.308 -1.290 -0.559 "HO2'" 70U 35 70U "H2'" H2* H 0 1 N N N 26.098 17.962 -7.836 -2.825 0.459 -0.250 "H2'" 70U 36 70U "HO3'" H3T H 0 0 N Y N 26.430 21.391 -9.268 -4.018 -1.390 -2.504 "HO3'" 70U 37 70U "H3'" H3* H 0 1 N N N 27.210 20.148 -7.533 -2.479 0.305 -2.531 "H3'" 70U 38 70U "H4'" H4* H 0 1 N N N 28.321 19.816 -10.392 -0.669 -2.102 -2.263 "H4'" 70U 39 70U "H5'" 1H5* H 0 1 N N N 30.303 20.956 -9.643 -0.646 -0.670 -4.297 "H5'" 70U 40 70U "H5''" 2H5* H 0 0 N N N 28.908 21.899 -9.480 -0.299 0.756 -3.291 "H5''" 70U 41 70U HOP2 2HOP H 0 0 N N N 32.398 22.781 -6.646 3.710 0.326 -5.639 HOP2 70U 42 70U HOP3 3HOP H 0 0 N N N 30.385 23.434 -5.380 1.238 -1.328 -6.114 HOP3 70U 43 # 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 70U N1 C2 SING N N 1 70U N1 C6 SING N N 2 70U N1 "C1'" SING N N 3 70U C2 S2 DOUB N N 4 70U C2 N3 SING N N 5 70U N3 C4 SING N N 6 70U N3 HN3 SING N N 7 70U C4 O4 DOUB N N 8 70U C4 C5 SING N N 9 70U C5 C6 DOUB N N 10 70U C5 C5M SING N N 11 70U C6 H6 SING N N 12 70U C5M C8 SING N N 13 70U C5M H71 SING N N 14 70U C5M H72 SING N N 15 70U C8 O8 DOUB N N 16 70U C8 O9 SING N N 17 70U O9 C9 SING N N 18 70U C9 H91 SING N N 19 70U C9 H92 SING N N 20 70U C9 H93 SING N N 21 70U "C1'" "C2'" SING N N 22 70U "C1'" "O4'" SING N N 23 70U "C1'" "H1'" SING N N 24 70U "O2'" "C2'" SING N N 25 70U "O2'" "HO2'" SING N N 26 70U "C2'" "C3'" SING N N 27 70U "C2'" "H2'" SING N N 28 70U "O3'" "C3'" SING N N 29 70U "O3'" "HO3'" SING N N 30 70U "C3'" "C4'" SING N N 31 70U "C3'" "H3'" SING N N 32 70U "C4'" "O4'" SING N N 33 70U "C4'" "C5'" SING N N 34 70U "C4'" "H4'" SING N N 35 70U "C5'" "O5'" SING N N 36 70U "C5'" "H5'" SING N N 37 70U "C5'" "H5''" SING N N 38 70U "O5'" P SING N N 39 70U P OP1 DOUB N N 40 70U P OP2 SING N N 41 70U P OP3 SING N N 42 70U OP2 HOP2 SING N N 43 70U OP3 HOP3 SING N N 44 # 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 70U SMILES ACDLabs 10.04 "O=C(OC)CC=1C(=O)NC(=S)N(C=1)C2OC(C(O)C2O)COP(=O)(O)O" 70U SMILES_CANONICAL CACTVS 3.341 "COC(=O)CC1=CN([C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2O)C(=S)NC1=O" 70U SMILES CACTVS 3.341 "COC(=O)CC1=CN([CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O)C(=S)NC1=O" 70U SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "COC(=O)CC1=CN(C(=S)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O" 70U SMILES "OpenEye OEToolkits" 1.5.0 "COC(=O)CC1=CN(C(=S)NC1=O)C2C(C(C(O2)COP(=O)(O)O)O)O" 70U InChI InChI 1.03 "InChI=1S/C12H17N2O10PS/c1-22-7(15)2-5-3-14(12(26)13-10(5)18)11-9(17)8(16)6(24-11)4-23-25(19,20)21/h3,6,8-9,11,16-17H,2,4H2,1H3,(H,13,18,26)(H2,19,20,21)/t6-,8-,9-,11-/m1/s1" 70U InChIKey InChI 1.03 RWXSPKNHAJLKOR-PNHWDRBUSA-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 70U "SYSTEMATIC NAME" ACDLabs 10.04 "5-(2-methoxy-2-oxoethyl)-1-(5-O-phosphono-beta-D-ribofuranosyl)-2-thioxo-2,3-dihydropyrimidin-4(1H)-one" 70U "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "methyl 2-[1-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-4-oxo-2-sulfanylidene-pyrimidin-5-yl]ethanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 70U "Create component" 2000-08-08 RCSB 70U "Modify descriptor" 2011-06-04 RCSB #