data_TMC # _chem_comp.id TMC _chem_comp.name "1-[4-HYDROXY-5-(HYDROXYMETHYL)BICYCLO[3.1.0]HEX-2-YL]-5-METHYLPYRIMIDINE-2,4(1H,3H)-DIONE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C12 H16 N2 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "(N)-METHANOCARBA-THYMIDINE" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2000-05-24 _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 252.266 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TMC _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 1E2K _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # # 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 TMC O16 O16 O 0 1 N N N 16.913 22.672 10.165 1.992 -0.205 -3.603 O16 TMC 1 TMC O18 O18 O 0 1 N N N 17.280 19.009 10.388 -0.002 1.826 -3.081 O18 TMC 2 TMC O9 O9 O 0 1 N N N 22.821 20.430 8.588 -2.578 -0.139 2.082 O9 TMC 3 TMC O7 O7 O 0 1 N N N 23.431 24.760 10.040 1.324 0.078 4.187 O7 TMC 4 TMC N8 N8 N 0 1 Y N N 20.924 21.677 9.166 -0.744 -0.081 0.844 N8 TMC 5 TMC N5 N5 N 0 1 Y N N 23.066 22.579 9.256 -0.660 -0.028 3.183 N5 TMC 6 TMC C1 C1 C 0 1 N N R 17.569 20.884 8.780 -0.029 -0.493 -2.311 C1 TMC 7 TMC C10 C10 C 0 1 N N S 18.087 20.141 10.004 -0.052 0.998 -1.918 C10 TMC 8 TMC C14 C14 C 0 1 N N N 19.551 19.791 9.800 -1.405 1.176 -1.184 C14 TMC 9 TMC C17 C17 C 0 1 N N S 19.990 20.664 8.542 -1.537 -0.144 -0.386 C17 TMC 10 TMC C13 C13 C 0 1 N N S 18.731 21.255 7.866 -0.975 -1.222 -1.336 C13 TMC 11 TMC C15 C15 C 0 1 N N N 17.697 20.226 7.441 -1.317 -1.118 -2.850 C15 TMC 12 TMC C12 C12 C 0 1 N N N 16.476 21.878 9.032 1.319 -1.095 -2.711 C12 TMC 13 TMC C11 C11 C 0 1 Y N N 22.273 21.466 8.999 -1.364 -0.084 2.037 C11 TMC 14 TMC C6 C6 C 0 1 Y N N 22.662 23.812 9.778 0.686 0.027 3.151 C6 TMC 15 TMC C4 C4 C 0 1 Y N N 21.232 23.939 9.965 1.351 0.036 1.902 C4 TMC 16 TMC C2 C2 C 0 1 Y N N 20.439 22.885 9.659 0.620 -0.021 0.768 C2 TMC 17 TMC C3 C3 C 0 1 N N N 20.660 25.271 10.449 2.855 0.102 1.838 C3 TMC 18 TMC H16 H16 H 0 1 N N N 16.220 23.302 10.324 2.835 -0.621 -3.830 H16 TMC 19 TMC H18 H18 H 0 1 N N N 17.603 18.545 11.151 -0.079 2.741 -2.777 H18 TMC 20 TMC H5 H5 H 0 1 N N N 24.057 22.479 9.036 -1.123 -0.030 4.035 H5 TMC 21 TMC H10 H10 H 0 1 N N N 18.003 20.827 10.878 0.777 1.229 -1.250 H10 TMC 22 TMC H142 2H14 H 0 0 N N N 20.186 19.939 10.703 -2.221 1.279 -1.898 H142 TMC 23 TMC H141 1H14 H 0 0 N N N 19.748 18.699 9.690 -1.369 2.032 -0.510 H141 TMC 24 TMC H17 H17 H 0 1 N N N 20.500 20.118 7.714 -2.582 -0.347 -0.154 H17 TMC 25 TMC H13 H13 H 0 1 N N N 19.160 22.144 7.349 -0.718 -2.193 -0.912 H13 TMC 26 TMC H152 2H15 H 0 0 N N N 17.743 19.168 7.089 -2.117 -0.442 -3.150 H152 TMC 27 TMC H151 1H15 H 0 0 N N N 17.025 20.109 6.558 -1.224 -2.028 -3.444 H151 TMC 28 TMC H122 2H12 H 0 0 N N N 15.473 21.410 9.175 1.928 -1.245 -1.819 H122 TMC 29 TMC H121 1H12 H 0 0 N N N 16.213 22.487 8.136 1.157 -2.052 -3.206 H121 TMC 30 TMC H2 H2 H 0 1 N N N 19.355 23.015 9.817 1.111 -0.020 -0.194 H2 TMC 31 TMC H33 3H3 H 0 1 N N N 19.558 25.368 10.593 3.260 0.142 2.849 H33 TMC 32 TMC H32 2H3 H 0 1 N N N 21.171 25.557 11.397 3.237 -0.782 1.329 H32 TMC 33 TMC H31 1H3 H 0 1 N N N 21.004 26.079 9.762 3.157 0.995 1.290 H31 TMC 34 # # 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 TMC O16 C12 SING N N 1 TMC O16 H16 SING N N 2 TMC O18 C10 SING N N 3 TMC O18 H18 SING N N 4 TMC O9 C11 DOUB N N 5 TMC O7 C6 DOUB N N 6 TMC N8 C17 SING N N 7 TMC N8 C11 SING Y N 8 TMC N8 C2 SING Y N 9 TMC N5 C11 SING Y N 10 TMC N5 C6 SING Y N 11 TMC N5 H5 SING N N 12 TMC C1 C10 SING N N 13 TMC C1 C13 SING N N 14 TMC C1 C15 SING N N 15 TMC C1 C12 SING N N 16 TMC C10 C14 SING N N 17 TMC C10 H10 SING N N 18 TMC C14 C17 SING N N 19 TMC C14 H142 SING N N 20 TMC C14 H141 SING N N 21 TMC C17 C13 SING N N 22 TMC C17 H17 SING N N 23 TMC C13 C15 SING N N 24 TMC C13 H13 SING N N 25 TMC C15 H152 SING N N 26 TMC C15 H151 SING N N 27 TMC C12 H122 SING N N 28 TMC C12 H121 SING N N 29 TMC C6 C4 SING Y N 30 TMC C4 C2 DOUB Y N 31 TMC C4 C3 SING N N 32 TMC C2 H2 SING N N 33 TMC C3 H33 SING N N 34 TMC C3 H32 SING N N 35 TMC C3 H31 SING N N 36 # # 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 TMC SMILES ACDLabs 10.04 "O=C1C(=CN(C(=O)N1)C3C2C(CO)(C2)C(O)C3)C" TMC SMILES_CANONICAL CACTVS 3.341 "CC1=CN([C@H]2C[C@H](O)[C@]3(CO)C[C@H]23)C(=O)NC1=O" TMC SMILES CACTVS 3.341 "CC1=CN([CH]2C[CH](O)[C]3(CO)C[CH]23)C(=O)NC1=O" TMC SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@]3([C@@H]2C3)CO)O" TMC SMILES "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2CC(C3(C2C3)CO)O" TMC InChI InChI 1.03 "InChI=1S/C12H16N2O4/c1-6-4-14(11(18)13-10(6)17)8-2-9(16)12(5-15)3-7(8)12/h4,7-9,15-16H,2-3,5H2,1H3,(H,13,17,18)/t7-,8+,9+,12+/m1/s1" TMC InChIKey InChI 1.03 NOWRLNPOENZFHP-ARHDFHRDSA-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 TMC "SYSTEMATIC NAME" ACDLabs 10.04 "1-[(1S,2S,4S,5R)-4-hydroxy-5-(hydroxymethyl)bicyclo[3.1.0]hex-2-yl]-5-methylpyrimidine-2,4(1H,3H)-dione" TMC "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "1-[(1R,2S,4S,5S)-2-hydroxy-1-(hydroxymethyl)-4-bicyclo[3.1.0]hexanyl]-5-methyl-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 TMC "Create component" 2000-05-24 EBI TMC "Modify descriptor" 2011-06-04 RCSB TMC "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id TMC _pdbx_chem_comp_synonyms.name "(N)-METHANOCARBA-THYMIDINE" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##