data_F7K # _chem_comp.id F7K _chem_comp.name "2-azanyl-9-[(1~{S},2~{R},4~{S},6~{S},8~{R})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-1~{H}-purin-6-one" _chem_comp.type "DNA linking" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C13 H15 N5 O4" _chem_comp.mon_nstd_parent_comp_id DG _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2018-06-07 _chem_comp.pdbx_modified_date 2019-05-06 _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 305.289 _chem_comp.one_letter_code G _chem_comp.three_letter_code F7K _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 6GN4 _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 F7K C8 C1 C 0 1 Y N N 5.834 2.577 14.043 -0.495 1.569 -0.075 C8 F7K 1 F7K C2 C2 C 0 1 N N N 3.549 -1.131 14.701 -3.931 -1.232 0.298 C2 F7K 2 F7K C4 C3 C 0 1 Y N N 4.982 0.613 14.461 -1.933 -0.075 0.221 C4 F7K 3 F7K C5 C4 C 0 1 Y N N 4.010 1.492 14.022 -2.603 1.082 -0.195 C5 F7K 4 F7K C6 C5 C 0 1 N N N 2.650 1.040 13.900 -4.007 1.029 -0.358 C6 F7K 5 F7K "O5'" O1 O 0 1 N N N 9.257 3.960 13.211 4.131 1.490 1.580 "O5'" F7K 6 F7K "C5'" C6 C 0 1 N N R 9.457 2.652 12.728 3.910 0.522 0.552 "C5'" F7K 7 F7K "C4'" C7 C 0 1 N N S 9.401 1.501 13.723 2.805 -0.523 0.792 "C4'" F7K 8 F7K "O4'" O2 O 0 1 N N N 8.462 1.807 14.761 1.594 0.154 1.175 "O4'" F7K 9 F7K "C1'" C8 C 0 1 N N R 7.482 0.769 14.867 0.488 -0.625 0.694 "C1'" F7K 10 F7K N9 N1 N 0 1 Y N N 6.160 1.316 14.472 -0.608 0.260 0.294 N9 F7K 11 F7K N7 N2 N 0 1 Y N N 4.569 2.737 13.760 -1.669 2.050 -0.362 N7 F7K 12 F7K O6 O3 O 0 1 N N N 1.670 1.686 13.530 -4.632 2.012 -0.719 O6 F7K 13 F7K N1 N3 N 0 1 N N N 2.507 -0.313 14.266 -4.639 -0.139 -0.105 N1 F7K 14 F7K N2 N4 N 0 1 N N N 3.237 -2.397 15.009 -4.601 -2.402 0.554 N2 F7K 15 F7K N3 N5 N 0 1 N N N 4.824 -0.700 14.818 -2.627 -1.194 0.460 N3 F7K 16 F7K "C3'" C9 C 0 1 N N S 8.918 0.262 12.988 2.488 -1.086 -0.627 "C3'" F7K 17 F7K "C2'" C10 C 0 1 N N N 7.900 -0.367 13.937 0.986 -1.429 -0.521 "C2'" F7K 18 F7K "C7'" C11 C 0 1 N N N 8.301 0.776 11.660 2.650 0.151 -1.538 "C7'" F7K 19 F7K "C6'" C12 C 0 1 N N S 8.761 2.211 11.471 3.821 0.942 -0.924 "C6'" F7K 20 F7K "C8'" C13 C 0 1 N N N 10.243 2.432 11.471 5.064 0.151 -0.382 "C8'" F7K 21 F7K "O3'" O4 O 0 1 N N N 10.025 -0.601 12.738 3.302 -2.199 -1.001 "O3'" F7K 22 F7K H8 H1 H 0 1 N N N 6.561 3.370 13.947 0.431 2.124 -0.118 H8 F7K 23 F7K "HO5'" H2 H 0 0 N N N 9.761 4.085 14.007 4.159 1.116 2.472 "HO5'" F7K 24 F7K "H4'" H3 H 0 1 N N N 10.403 1.320 14.138 3.102 -1.291 1.507 "H4'" F7K 25 F7K "H1'" H4 H 0 1 N N N 7.433 0.391 15.899 0.148 -1.306 1.474 "H1'" F7K 26 F7K H1 H5 H 0 1 N N N 1.593 -0.715 14.210 -5.602 -0.199 -0.210 H1 F7K 27 F7K H21 H6 H 0 1 N N N 3.948 -3.024 15.326 -4.111 -3.185 0.850 H21 F7K 28 F7K H22 H7 H 0 1 N N N 2.293 -2.715 14.922 -5.563 -2.445 0.439 H22 F7K 29 F7K "H2''" H8 H 0 0 N N N 7.033 -0.749 13.378 0.851 -2.497 -0.351 "H2''" F7K 30 F7K "H2'" H9 H 0 1 N N N 8.358 -1.187 14.509 0.460 -1.117 -1.424 "H2'" F7K 31 F7K "H7''" H10 H 0 0 N N N 7.203 0.737 11.716 2.892 -0.156 -2.556 "H7''" F7K 32 F7K "H7'" H11 H 0 1 N N N 8.648 0.156 10.820 1.739 0.750 -1.530 "H7'" F7K 33 F7K "H6'" H12 H 0 1 N N N 8.107 2.917 10.938 3.949 1.975 -1.247 "H6'" F7K 34 F7K "H8''" H13 H 0 0 N N N 10.927 1.574 11.394 6.003 0.697 -0.283 "H8''" F7K 35 F7K "H8'" H14 H 0 1 N N N 10.670 3.291 10.933 5.158 -0.896 -0.669 "H8'" F7K 36 F7K H2 H15 H 0 1 N N N 10.385 -0.902 13.564 3.108 -2.551 -1.880 H2 F7K 37 # # 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 F7K "C6'" "C8'" SING N N 1 F7K "C6'" "C7'" SING N N 2 F7K "C6'" "C5'" SING N N 3 F7K "C8'" "C5'" SING N N 4 F7K "C7'" "C3'" SING N N 5 F7K "C5'" "O5'" SING N N 6 F7K "C5'" "C4'" SING N N 7 F7K "O3'" "C3'" SING N N 8 F7K "C3'" "C4'" SING N N 9 F7K "C3'" "C2'" SING N N 10 F7K O6 C6 DOUB N N 11 F7K "C4'" "O4'" SING N N 12 F7K N7 C5 SING Y N 13 F7K N7 C8 DOUB Y N 14 F7K C6 C5 SING N N 15 F7K C6 N1 SING N N 16 F7K "C2'" "C1'" SING N N 17 F7K C5 C4 DOUB Y N 18 F7K C8 N9 SING Y N 19 F7K N1 C2 SING N N 20 F7K C4 N9 SING Y N 21 F7K C4 N3 SING N N 22 F7K N9 "C1'" SING N N 23 F7K C2 N3 DOUB N N 24 F7K C2 N2 SING N N 25 F7K "O4'" "C1'" SING N N 26 F7K C8 H8 SING N N 27 F7K "O5'" "HO5'" SING N N 28 F7K "C4'" "H4'" SING N N 29 F7K "C1'" "H1'" SING N N 30 F7K N1 H1 SING N N 31 F7K N2 H21 SING N N 32 F7K N2 H22 SING N N 33 F7K "C2'" "H2''" SING N N 34 F7K "C2'" "H2'" SING N N 35 F7K "C7'" "H7''" SING N N 36 F7K "C7'" "H7'" SING N N 37 F7K "C6'" "H6'" SING N N 38 F7K "C8'" "H8''" SING N N 39 F7K "C8'" "H8'" SING N N 40 F7K "O3'" H2 SING N N 41 # # 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 F7K InChI InChI 1.03 "InChI=1S/C13H15N5O4/c14-11-16-8-7(9(19)17-11)15-4-18(8)6-3-12(20)1-5-2-13(5,21)10(12)22-6/h4-6,10,20-21H,1-3H2,(H3,14,16,17,19)/t5-,6-,10+,12+,13-/m1/s1" F7K InChIKey InChI 1.03 AFXULUSIHCQUMJ-CFFIBIDHSA-N F7K SMILES_CANONICAL CACTVS 3.385 "NC1=Nc2n(cnc2C(=O)N1)[C@H]3C[C@@]4(O)C[C@@H]5C[C@]5(O)[C@H]4O3" F7K SMILES CACTVS 3.385 "NC1=Nc2n(cnc2C(=O)N1)[CH]3C[C]4(O)C[CH]5C[C]5(O)[CH]4O3" F7K SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "c1nc2c(n1[C@H]3C[C@]4(C[C@@H]5C[C@@]5([C@H]4O3)O)O)N=C(NC2=O)N" F7K SMILES "OpenEye OEToolkits" 2.0.6 "c1nc2c(n1C3CC4(CC5CC5(C4O3)O)O)N=C(NC2=O)N" # _pdbx_chem_comp_identifier.comp_id F7K _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.6 _pdbx_chem_comp_identifier.identifier "2-azanyl-9-[(1~{S},2~{R},4~{S},6~{S},8~{R})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-1~{H}-purin-6-one" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site F7K "Create component" 2018-06-07 EBI F7K "Initial release" 2018-06-13 RCSB F7K "Modify one letter code" 2019-05-06 EBI ##