data_8OG # _chem_comp.id 8OG _chem_comp.name "8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H14 N5 O8 P" _chem_comp.mon_nstd_parent_comp_id DG _chem_comp.pdbx_synonyms "8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2000-10-03 _chem_comp.pdbx_modified_date 2021-03-13 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces G42 _chem_comp.formula_weight 363.221 _chem_comp.one_letter_code G _chem_comp.three_letter_code 8OG _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 1FYI _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 8OG OP3 O3P O 0 1 N Y N 7.429 2.159 13.160 -2.374 -1.097 5.276 OP3 8OG 1 8OG P P P 0 1 N N N 8.128 0.716 13.345 -1.154 -0.182 4.760 P 8OG 2 8OG OP1 O1P O 0 1 N N N 9.570 0.857 13.045 -1.651 1.177 4.455 OP1 8OG 3 8OG OP2 O2P O 0 1 N Y N 7.319 -0.291 12.620 -0.026 -0.096 5.906 OP2 8OG 4 8OG "O5'" O5* O 0 1 N N N 7.962 0.444 14.922 -0.520 -0.832 3.431 "O5'" 8OG 5 8OG "C5'" C5* C 0 1 N N N 8.821 1.090 15.868 0.551 0.020 3.025 "C5'" 8OG 6 8OG "C4'" C4* C 0 1 N N R 8.557 0.605 17.292 1.200 -0.543 1.759 "C4'" 8OG 7 8OG "O4'" O4* O 0 1 N N N 7.204 0.919 17.702 0.277 -0.503 0.648 "O4'" 8OG 8 8OG "C3'" C3* C 0 1 N N S 8.735 -0.908 17.399 2.369 0.362 1.295 "C3'" 8OG 9 8OG "O3'" O3* O 0 1 N N N 9.677 -1.231 18.432 3.583 0.011 1.960 "O3'" 8OG 10 8OG "C2'" C2* C 0 1 N N N 7.362 -1.441 17.714 2.451 0.036 -0.215 "C2'" 8OG 11 8OG "C1'" C1* C 0 1 N N R 6.602 -0.255 18.274 1.066 -0.549 -0.552 "C1'" 8OG 12 8OG N9 N9 N 0 1 N N N 5.163 -0.328 17.949 0.428 0.251 -1.599 N9 8OG 13 8OG C8 C8 C 0 1 N N N 4.182 -0.132 18.866 0.134 1.562 -1.514 C8 8OG 14 8OG N7 N7 N 0 1 N N N 2.999 -0.208 18.425 -0.447 1.967 -2.660 N7 8OG 15 8OG C5 C5 C 0 1 N N N 3.127 -0.485 17.066 -0.526 0.864 -3.514 C5 8OG 16 8OG C6 C6 C 0 1 N N N 2.154 -0.681 16.054 -1.019 0.670 -4.812 C6 8OG 17 8OG O6 O6 O 0 1 N N N 0.931 -0.645 16.151 -1.513 1.595 -5.437 O6 8OG 18 8OG N1 N1 N 0 1 N N N 2.753 -0.941 14.827 -0.930 -0.563 -5.358 N1 8OG 19 8OG C2 C2 C 0 1 N N N 4.117 -1.003 14.598 -0.381 -1.587 -4.647 C2 8OG 20 8OG N2 N2 N 0 1 N N N 4.494 -1.251 13.345 -0.306 -2.832 -5.218 N2 8OG 21 8OG N3 N3 N 0 1 N N N 5.044 -0.818 15.548 0.082 -1.411 -3.429 N3 8OG 22 8OG C4 C4 C 0 1 N N N 4.490 -0.565 16.752 0.028 -0.213 -2.835 C4 8OG 23 8OG O8 O8 O 0 1 N N N 4.496 0.091 20.033 0.357 2.271 -0.551 O8 8OG 24 8OG HOP3 3HOP H 0 0 N N N 6.503 2.068 13.352 -2.725 -0.673 6.071 HOP3 8OG 25 8OG HOP2 2HOP H 0 0 N N N 7.730 -1.140 12.728 0.270 -1.001 6.075 HOP2 8OG 26 8OG "H5'" 1H5* H 0 1 N N N 8.655 2.166 15.823 1.294 0.074 3.821 "H5'" 8OG 27 8OG "H5''" 2H5* H 0 0 N N N 9.858 0.878 15.608 0.164 1.018 2.820 "H5''" 8OG 28 8OG "H4'" H4* H 0 1 N N N 9.255 1.094 17.970 1.549 -1.562 1.930 "H4'" 8OG 29 8OG "H3'" H3* H 0 1 N N N 9.068 -1.308 16.446 2.131 1.414 1.453 "H3'" 8OG 30 8OG "HO3'" H3T H 0 0 N Y N 9.787 -2.172 18.498 4.285 0.544 1.562 "HO3'" 8OG 31 8OG "H2'" 1H2* H 0 1 N N N 6.884 -1.789 16.798 3.233 -0.699 -0.404 "H2'" 8OG 32 8OG "H2''" 2H2* H 0 0 N N N 7.416 -2.255 18.441 2.633 0.942 -0.792 "H2''" 8OG 33 8OG "H1'" H1* H 0 1 N N N 6.728 -0.223 19.355 1.172 -1.581 -0.887 "H1'" 8OG 34 8OG H7 H7 H 0 1 N N N 2.149 -0.134 18.957 -0.755 2.865 -2.858 H7 8OG 35 8OG H1 H1 H 0 1 N N N 2.123 -1.093 14.052 -1.264 -0.721 -6.255 H1 8OG 36 8OG H21 1H2 H 0 1 N N N 5.475 -1.299 13.114 0.084 -3.569 -4.725 H21 8OG 37 8OG H22 2H2 H 0 1 N N N 3.798 -1.392 12.628 -0.649 -2.976 -6.114 H22 8OG 38 # # 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 8OG OP3 P SING N N 1 8OG OP3 HOP3 SING N N 2 8OG P OP1 DOUB N N 3 8OG P OP2 SING N N 4 8OG P "O5'" SING N N 5 8OG OP2 HOP2 SING N N 6 8OG "O5'" "C5'" SING N N 7 8OG "C5'" "C4'" SING N N 8 8OG "C5'" "H5'" SING N N 9 8OG "C5'" "H5''" SING N N 10 8OG "C4'" "O4'" SING N N 11 8OG "C4'" "C3'" SING N N 12 8OG "C4'" "H4'" SING N N 13 8OG "O4'" "C1'" SING N N 14 8OG "C3'" "O3'" SING N N 15 8OG "C3'" "C2'" SING N N 16 8OG "C3'" "H3'" SING N N 17 8OG "O3'" "HO3'" SING N N 18 8OG "C2'" "C1'" SING N N 19 8OG "C2'" "H2'" SING N N 20 8OG "C2'" "H2''" SING N N 21 8OG "C1'" N9 SING N N 22 8OG "C1'" "H1'" SING N N 23 8OG N9 C8 SING N N 24 8OG N9 C4 SING N N 25 8OG C8 N7 SING N N 26 8OG C8 O8 DOUB N N 27 8OG N7 C5 SING N N 28 8OG N7 H7 SING N N 29 8OG C5 C6 SING N N 30 8OG C5 C4 DOUB N N 31 8OG C6 O6 DOUB N N 32 8OG C6 N1 SING N N 33 8OG N1 C2 SING N N 34 8OG N1 H1 SING N N 35 8OG C2 N2 SING N N 36 8OG C2 N3 DOUB N N 37 8OG N2 H21 SING N N 38 8OG N2 H22 SING N N 39 8OG N3 C4 SING N N 40 # # 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 8OG SMILES ACDLabs 10.04 "O=C1C=2NC(=O)N(C=2N=C(N)N1)C3OC(C(O)C3)COP(=O)(O)O" 8OG SMILES_CANONICAL CACTVS 3.341 "NC1=NC2=C(NC(=O)N2[C@H]3C[C@H](O)[C@@H](CO[P](O)(O)=O)O3)C(=O)N1" 8OG SMILES CACTVS 3.341 "NC1=NC2=C(NC(=O)N2[CH]3C[CH](O)[CH](CO[P](O)(O)=O)O3)C(=O)N1" 8OG SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1[C@@H]([C@H](O[C@H]1N2C3=C(C(=O)NC(=N3)N)NC2=O)COP(=O)(O)O)O" 8OG SMILES "OpenEye OEToolkits" 1.5.0 "C1C(C(OC1N2C3=C(C(=O)NC(=N3)N)NC2=O)COP(=O)(O)O)O" 8OG InChI InChI 1.03 "InChI=1S/C10H14N5O8P/c11-9-13-7-6(8(17)14-9)12-10(18)15(7)5-1-3(16)4(23-5)2-22-24(19,20)21/h3-5,16H,1-2H2,(H,12,18)(H2,19,20,21)(H3,11,13,14,17)/t3-,4+,5+/m0/s1" 8OG InChIKey InChI 1.03 AQIVLFLYHYFRKU-VPENINKCSA-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 8OG "SYSTEMATIC NAME" ACDLabs 10.04 "2'-deoxy-8-oxoguanosine 5'-(dihydrogen phosphate)" 8OG "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,5R)-5-(2-amino-6,8-dioxo-1,7-dihydropurin-9-yl)-3-hydroxy-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 8OG "Create component" 2000-10-03 RCSB 8OG "Modify descriptor" 2011-06-04 RCSB 8OG "Modify synonyms" 2021-03-13 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id 8OG _pdbx_chem_comp_synonyms.name "8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? ##