data_0G8 # _chem_comp.id 0G8 _chem_comp.name "[(2R,5S)-5-(4-amino-2-oxopyrimidin-1(2H)-yl)-1,3-oxathiolan-2-yl]methyl trihydrogen diphosphate" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C8 H13 N3 O9 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2012-01-06 _chem_comp.pdbx_modified_date 2014-08-22 _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 389.216 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 0G8 _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 3VCW _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 0G8 O2 O2 O 0 1 N N N 31.262 11.254 14.242 4.772 -0.422 -1.551 O2 0G8 1 0G8 C2 C2 C 0 1 N N N 30.779 12.196 14.861 4.404 0.342 -0.674 C2 0G8 2 0G8 N3 N3 N 0 1 N N N 31.532 13.278 15.151 4.999 1.526 -0.544 N3 0G8 3 0G8 C4 C4 C 0 1 N N N 31.025 14.317 15.843 4.618 2.376 0.400 C4 0G8 4 0G8 N4 N4 N 0 1 N N N 31.800 15.359 16.113 5.241 3.596 0.525 N4 0G8 5 0G8 C5 C5 C 0 1 N N N 29.709 14.304 16.277 3.570 2.021 1.275 C5 0G8 6 0G8 C6 C6 C 0 1 N N N 28.902 13.211 15.999 2.974 0.814 1.130 C6 0G8 7 0G8 N1 N1 N 0 1 N N N 29.456 12.140 15.275 3.398 -0.023 0.141 N1 0G8 8 0G8 "C1'" "C1'" C 0 1 N N S 28.614 10.965 14.949 2.758 -1.330 -0.030 "C1'" 0G8 9 0G8 "O4'" "O4'" O 0 1 N N N 27.791 10.665 16.088 1.698 -1.482 0.924 "O4'" 0G8 10 0G8 "C2'" "C2'" C 0 1 N N N 27.680 11.312 13.786 2.129 -1.427 -1.450 "C2'" 0G8 11 0G8 "S3'" "S3'" S 0 1 N N N 26.358 10.076 14.038 0.933 -2.799 -1.182 "S3'" 0G8 12 0G8 "C4'" "C4'" C 0 1 N N R 26.934 9.580 15.699 0.870 -2.626 0.643 "C4'" 0G8 13 0G8 "C5'" "C5'" C 0 1 N N N 25.792 9.485 16.708 -0.566 -2.374 1.107 "C5'" 0G8 14 0G8 "O5'" "O5'" O 0 1 N N N 26.320 9.488 18.035 -1.067 -1.189 0.483 "O5'" 0G8 15 0G8 PA PA P 0 1 N N N 25.357 9.859 19.267 -2.551 -0.622 0.742 PA 0G8 16 0G8 O2A O2A O 0 1 N N N 24.010 9.314 19.002 -3.542 -1.681 0.449 O2A 0G8 17 0G8 O1A O1A O 0 1 N N N 26.029 9.445 20.520 -2.690 -0.167 2.280 O1A 0G8 18 0G8 O3A O3A O 0 1 N N N 25.339 11.468 19.230 -2.817 0.643 -0.218 O3A 0G8 19 0G8 PB PB P 0 1 N N N 24.095 12.342 19.767 -4.137 1.446 -0.670 PB 0G8 20 0G8 O1B O1B O 0 1 N N N 23.963 12.079 21.350 -4.565 2.473 0.494 O1B 0G8 21 0G8 O3B O3B O 0 1 N N N 24.554 13.875 19.593 -3.831 2.265 -2.022 O3B 0G8 22 0G8 O2B O2B O 0 1 N N N 22.823 12.067 19.069 -5.239 0.488 -0.912 O2B 0G8 23 0G8 H1 H1 H 0 1 N N N 32.751 15.368 15.804 5.961 3.837 -0.078 H1 0G8 24 0G8 H2 H2 H 0 1 N N N 31.433 16.135 16.626 4.959 4.215 1.217 H2 0G8 25 0G8 H3 H3 H 0 1 N N N 29.313 15.143 16.830 3.248 2.702 2.049 H3 0G8 26 0G8 H4 H4 H 0 1 N N N 27.874 13.183 16.330 2.170 0.520 1.787 H4 0G8 27 0G8 H5 H5 H 0 1 N N N 29.243 10.105 14.677 3.494 -2.122 0.105 H5 0G8 28 0G8 H6 H6 H 0 1 N N N 28.177 11.182 12.813 1.618 -0.504 -1.721 H6 0G8 29 0G8 H7 H7 H 0 1 N N N 27.296 12.340 13.867 2.878 -1.696 -2.196 H7 0G8 30 0G8 H8 H8 H 0 1 N N N 27.468 8.623 15.600 1.275 -3.517 1.124 H8 0G8 31 0G8 H9 H9 H 0 1 N N N 25.119 10.346 16.580 -1.192 -3.222 0.830 H9 0G8 32 0G8 H10 H10 H 0 1 N N N 25.232 8.553 16.540 -0.582 -2.248 2.190 H10 0G8 33 0G8 H11 H11 H 0 1 N N N 25.464 8.853 21.002 -2.070 0.527 2.543 H11 0G8 34 0G8 H12 H12 H 0 1 N N N 23.080 11.791 21.551 -3.890 3.131 0.706 H12 0G8 35 0G8 H13 H13 H 0 1 N N N 23.916 14.339 19.064 -4.584 2.773 -2.353 H13 0G8 36 # 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 0G8 "C2'" "S3'" SING N N 1 0G8 "C2'" "C1'" SING N N 2 0G8 "S3'" "C4'" SING N N 3 0G8 O2 C2 DOUB N N 4 0G8 C2 N3 SING N N 5 0G8 C2 N1 SING N N 6 0G8 "C1'" N1 SING N N 7 0G8 "C1'" "O4'" SING N N 8 0G8 N3 C4 DOUB N N 9 0G8 N1 C6 SING N N 10 0G8 "C4'" "O4'" SING N N 11 0G8 "C4'" "C5'" SING N N 12 0G8 C4 N4 SING N N 13 0G8 C4 C5 SING N N 14 0G8 C6 C5 DOUB N N 15 0G8 "C5'" "O5'" SING N N 16 0G8 "O5'" PA SING N N 17 0G8 O2A PA DOUB N N 18 0G8 O2B PB DOUB N N 19 0G8 O3A PA SING N N 20 0G8 O3A PB SING N N 21 0G8 PA O1A SING N N 22 0G8 O3B PB SING N N 23 0G8 PB O1B SING N N 24 0G8 N4 H1 SING N N 25 0G8 N4 H2 SING N N 26 0G8 C5 H3 SING N N 27 0G8 C6 H4 SING N N 28 0G8 "C1'" H5 SING N N 29 0G8 "C2'" H6 SING N N 30 0G8 "C2'" H7 SING N N 31 0G8 "C4'" H8 SING N N 32 0G8 "C5'" H9 SING N N 33 0G8 "C5'" H10 SING N N 34 0G8 O1A H11 SING N N 35 0G8 O1B H12 SING N N 36 0G8 O3B H13 SING N N 37 # 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 0G8 SMILES ACDLabs 12.01 "O=P(O)(O)OP(=O)(O)OCC2OC(N1C(=O)N=C(N)C=C1)CS2" 0G8 InChI InChI 1.03 "InChI=1S/C8H13N3O9P2S/c9-5-1-2-11(8(12)10-5)6-4-23-7(19-6)3-18-22(16,17)20-21(13,14)15/h1-2,6-7H,3-4H2,(H,16,17)(H2,9,10,12)(H2,13,14,15)/t6-,7+/m0/s1" 0G8 InChIKey InChI 1.03 AAHOBGDTTMOZKD-NKWVEPMBSA-N 0G8 SMILES_CANONICAL CACTVS 3.370 "NC1=NC(=O)N(C=C1)[C@@H]2CS[C@H](CO[P](O)(=O)O[P](O)(O)=O)O2" 0G8 SMILES CACTVS 3.370 "NC1=NC(=O)N(C=C1)[CH]2CS[CH](CO[P](O)(=O)O[P](O)(O)=O)O2" 0G8 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1[C@H](O[C@H](S1)COP(=O)(O)OP(=O)(O)O)N2C=CC(=NC2=O)N" 0G8 SMILES "OpenEye OEToolkits" 1.7.6 "C1C(OC(S1)COP(=O)(O)OP(=O)(O)O)N2C=CC(=NC2=O)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 0G8 "SYSTEMATIC NAME" ACDLabs 12.01 "[(2R,5S)-5-(4-amino-2-oxopyrimidin-1(2H)-yl)-1,3-oxathiolan-2-yl]methyl trihydrogen diphosphate" 0G8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R,5S)-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-1,3-oxathiolan-2-yl]methyl phosphono hydrogen 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 0G8 "Create component" 2012-01-06 RCSB 0G8 "Initial release" 2014-08-27 RCSB #