data_U8U # _chem_comp.id U8U _chem_comp.name "5-METHYLAMINOMETHYL-2-THIOURIDINE-5'-MONOPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C11 H18 N3 O8 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 2000-05-16 _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 383.315 _chem_comp.one_letter_code U _chem_comp.three_letter_code U8U _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details ? _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 U8U N1 N1 N 0 1 N N N 33.531 -2.095 1.569 0.452 2.524 0.177 N1 U8U 1 U8U C2 C2 C 0 1 N N N 33.653 -3.176 0.793 -0.296 3.395 1.014 C2 U8U 2 U8U S2 S2 S 0 1 N N N 34.210 -3.052 -0.925 -0.231 3.428 2.695 S2 U8U 3 U8U N3 N3 N 0 1 N N N 33.358 -4.424 1.314 -1.141 4.296 0.369 N3 U8U 4 U8U C4 C4 C 0 1 N N N 32.943 -4.693 2.606 -1.318 4.438 -0.998 C4 U8U 5 U8U O4 O4 O 0 1 N N N 32.734 -5.852 2.958 -2.087 5.250 -1.504 O4 U8U 6 U8U C5 C5 C 0 1 N N N 32.784 -3.514 3.427 -0.491 3.525 -1.829 C5 U8U 7 U8U C6 C6 C 0 1 N N N 33.041 -2.280 2.931 0.317 2.655 -1.210 C6 U8U 8 U8U C C C 0 1 N N N 32.324 -3.662 4.865 -0.607 3.631 -3.316 C U8U 9 U8U N N N 0 1 N N N 30.894 -3.325 4.962 -1.648 2.736 -3.733 N U8U 10 U8U CA CA C 0 1 N N N 30.335 -3.507 6.314 -1.848 2.775 -5.184 CA U8U 11 U8U "C1'" C1* C 0 1 N N R 33.880 -0.753 1.126 1.373 1.543 0.675 "C1'" U8U 12 U8U "O2'" O2* O 0 1 N N N 32.989 0.188 -0.896 0.137 -0.058 2.041 "O2'" U8U 13 U8U "C2'" C2* C 0 1 N N R 32.697 -0.045 0.462 0.748 0.163 0.786 "C2'" U8U 14 U8U "O3'" O3* O 0 1 N N N 32.311 2.389 0.332 2.742 -0.809 1.739 "O3'" U8U 15 U8U "C3'" C3* C 0 1 N N S 32.560 1.284 1.206 1.940 -0.742 0.560 "C3'" U8U 16 U8U "C4'" C4* C 0 1 N N R 33.917 1.430 1.881 2.725 0.023 -0.498 "C4'" U8U 17 U8U "O4'" O4* O 0 1 N N N 34.316 0.099 2.183 2.470 1.422 -0.246 "O4'" U8U 18 U8U "C5'" C5* C 0 1 N N N 33.927 2.312 3.126 2.282 -0.292 -1.921 "C5'" U8U 19 U8U "O5'" O5* O 0 1 N N N 33.025 1.827 4.096 3.063 0.476 -2.819 "O5'" U8U 20 U8U P P P 0 1 N N N 32.831 2.614 5.487 2.787 0.324 -4.407 P U8U 21 U8U OP1 O1P O 0 1 N N N 32.319 3.969 5.184 3.659 1.172 -5.286 OP1 U8U 22 U8U OP2 O2P O 0 1 N N N 34.074 2.458 6.275 1.198 0.588 -4.548 OP2 U8U 23 U8U OP3 O3P O 0 1 N Y N ? ? ? 2.921 -1.270 -4.647 OP3 U8U 24 U8U HN3 HN3 H 0 1 N N N 33.454 -5.206 0.698 -1.684 4.915 0.964 HN3 U8U 25 U8U H6 H6 H 0 1 N N N 32.880 -1.415 3.557 0.934 1.978 -1.792 H6 U8U 26 U8U HC1 1HC H 0 1 N N N 32.904 -2.983 5.507 0.346 3.351 -3.764 HC1 U8U 27 U8U HC2 2HC H 0 1 N N N 32.479 -4.700 5.194 -0.855 4.660 -3.577 HC2 U8U 28 U8U HN1 1HN H 0 1 N N N 30.783 -2.365 4.706 -1.418 1.772 -3.467 HN1 U8U 29 U8U HA1 1HA H 0 1 N N N 29.759 -4.444 6.349 -2.153 1.791 -5.548 HA1 U8U 30 U8U HA2 2HA H 0 1 N N N 29.674 -2.661 6.554 -0.920 3.064 -5.685 HA2 U8U 31 U8U HA3 3HA H 0 1 N N N 31.154 -3.552 7.047 -2.625 3.501 -5.439 HA3 U8U 32 U8U "H1'" H1* H 0 1 N N N 34.703 -0.914 0.414 1.754 1.910 1.633 "H1'" U8U 33 U8U "HO2'" 2HO* H 0 0 N N N 32.179 0.240 -1.390 0.698 0.368 2.713 "HO2'" U8U 34 U8U "H2'" H2* H 0 1 N N N 31.772 -0.639 0.507 -0.000 0.004 -0.000 "H2'" U8U 35 U8U "HO3'" H3T H 0 0 N Y N 31.382 2.437 0.138 3.594 -1.183 1.470 "HO3'" U8U 36 U8U "H3'" H3* H 0 1 N N N 31.706 1.285 1.899 1.675 -1.764 0.277 "H3'" U8U 37 U8U "H4'" H4* H 0 1 N N N 34.612 1.952 1.208 3.804 -0.139 -0.410 "H4'" U8U 38 U8U "H5'" 1H5* H 0 1 N N N 33.621 3.329 2.839 1.229 -0.035 -2.051 "H5'" U8U 39 U8U "H5''" 2H5* H 0 0 N N N 34.941 2.318 3.552 2.428 -1.352 -2.133 "H5''" U8U 40 U8U HOP2 2HOP H 0 0 N N N 34.820 2.425 5.688 0.799 0.616 -5.443 HOP2 U8U 41 U8U HOP3 3HOP H 0 0 N N N -0.114 0.464 0.821 2.886 -1.617 -5.563 HOP3 U8U 42 # 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 U8U N1 C2 SING N N 1 U8U N1 C6 SING N N 2 U8U N1 "C1'" SING N N 3 U8U C2 S2 DOUB N N 4 U8U C2 N3 SING N N 5 U8U N3 C4 SING N N 6 U8U N3 HN3 SING N N 7 U8U C4 O4 DOUB N N 8 U8U C4 C5 SING N N 9 U8U C5 C6 DOUB N N 10 U8U C5 C SING N N 11 U8U C6 H6 SING N N 12 U8U C N SING N N 13 U8U C HC1 SING N N 14 U8U C HC2 SING N N 15 U8U N CA SING N N 16 U8U N HN1 SING N N 17 U8U CA HA1 SING N N 18 U8U CA HA2 SING N N 19 U8U CA HA3 SING N N 20 U8U "C1'" "C2'" SING N N 21 U8U "C1'" "O4'" SING N N 22 U8U "C1'" "H1'" SING N N 23 U8U "O2'" "C2'" SING N N 24 U8U "O2'" "HO2'" SING N N 25 U8U "C2'" "C3'" SING N N 26 U8U "C2'" "H2'" SING N N 27 U8U "O3'" "C3'" SING N N 28 U8U "O3'" "HO3'" SING N N 29 U8U "C3'" "C4'" SING N N 30 U8U "C3'" "H3'" SING N N 31 U8U "C4'" "O4'" SING N N 32 U8U "C4'" "C5'" SING N N 33 U8U "C4'" "H4'" SING N N 34 U8U "C5'" "O5'" SING N N 35 U8U "C5'" "H5'" SING N N 36 U8U "C5'" "H5''" SING N N 37 U8U "O5'" P SING N N 38 U8U P OP1 DOUB N N 39 U8U P OP2 SING N N 40 U8U P OP3 SING N N 41 U8U OP2 HOP2 SING N N 42 U8U OP3 HOP3 SING N N 43 # 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 U8U SMILES ACDLabs 10.04 "O=C1NC(=S)N(C=C1CNC)C2OC(C(O)C2O)COP(=O)(O)O" U8U SMILES_CANONICAL CACTVS 3.341 "CNCC1=CN([C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2O)C(=S)NC1=O" U8U SMILES CACTVS 3.341 "CNCC1=CN([CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O)C(=S)NC1=O" U8U SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CNCC1=CN(C(=S)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O" U8U SMILES "OpenEye OEToolkits" 1.5.0 "CNCC1=CN(C(=S)NC1=O)C2C(C(C(O2)COP(=O)(O)O)O)O" U8U InChI InChI 1.03 "InChI=1S/C11H18N3O8PS/c1-12-2-5-3-14(11(24)13-9(5)17)10-8(16)7(15)6(22-10)4-21-23(18,19)20/h3,6-8,10,12,15-16H,2,4H2,1H3,(H,13,17,24)(H2,18,19,20)/t6-,7-,8-,10-/m1/s1" U8U InChIKey InChI 1.03 LVNQROXSHGRCLA-FDDDBJFASA-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 U8U "SYSTEMATIC NAME" ACDLabs 10.04 "5-[(methylamino)methyl]-1-(5-O-phosphono-beta-D-ribofuranosyl)-2-thioxo-2,3-dihydropyrimidin-4(1H)-one" U8U "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-3,4-dihydroxy-5-[5-(methylaminomethyl)-4-oxo-2-sulfanylidene-pyrimidin-1-yl]oxolan-2-yl]methyl dihydrogen 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 U8U "Create component" 2000-05-16 RCSB U8U "Modify descriptor" 2011-06-04 RCSB #