data_F7R # _chem_comp.id F7R _chem_comp.name "[(2R)-2-[2-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)ethanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate" _chem_comp.type "DNA linking" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C9 H15 N4 O7 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-04-07 _chem_comp.pdbx_modified_date 2020-11-20 _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 322.212 _chem_comp.one_letter_code ? _chem_comp.three_letter_code F7R _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 7BPG _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # # 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 F7R O2 O1 O 0 1 N N N -5.260 18.989 22.599 -3.283 -1.443 1.445 O2 F7R 1 F7R C6 C1 C 0 1 N N N -5.321 22.370 23.491 -3.843 1.562 -0.167 C6 F7R 2 F7R N1 N1 N 0 1 N N N -4.938 21.168 22.888 -3.205 0.561 0.501 N1 F7R 3 F7R C4 C2 C 0 1 N N N -6.947 21.157 24.771 -5.820 0.235 -0.107 C4 F7R 4 F7R C2 C3 C 0 1 N N N -5.578 20.029 23.173 -3.870 -0.557 0.847 C2 F7R 5 F7R C5 C4 C 0 1 N N N -6.325 22.370 24.456 -5.153 1.420 -0.479 C5 F7R 6 F7R OP1 O2 O 0 1 N N N -0.070 25.998 19.283 5.814 -0.124 -0.747 OP1 F7R 7 F7R P P1 P 0 1 N N N -1.626 25.830 18.870 4.762 0.464 0.321 P F7R 8 F7R OP2 O3 O 0 1 N N N -2.335 27.008 17.898 4.789 1.943 0.276 OP2 F7R 9 F7R "O3'" O4 O 0 1 N N N -2.085 24.288 18.869 3.282 -0.057 -0.040 "O3'" F7R 10 F7R "C3'" C5 C 0 1 N N N -3.354 23.982 18.283 2.601 0.308 -1.242 "C3'" F7R 11 F7R "C2'" C6 C 0 1 N N R -4.264 24.146 19.459 1.223 -0.358 -1.269 "C2'" F7R 12 F7R "C1'" C7 C 0 1 N N N -5.733 24.322 19.094 1.384 -1.869 -1.093 "C1'" F7R 13 F7R "O1'" O5 O 0 1 N N N -6.312 25.107 20.151 2.121 -2.134 0.102 "O1'" F7R 14 F7R "N2'" N2 N 0 1 N N N -3.908 23.050 20.394 0.401 0.176 -0.180 "N2'" F7R 15 F7R C2A C8 C 0 1 N N N -4.634 21.990 20.806 -0.943 0.152 -0.276 C2A F7R 16 F7R O2A O6 O 0 1 N N N -5.822 21.722 20.598 -1.472 -0.311 -1.264 O2A F7R 17 F7R C2B C9 C 0 1 N N N -3.893 21.182 21.841 -1.788 0.701 0.845 C2B F7R 18 F7R N3 N3 N 0 1 N N N -6.578 20.012 24.131 -5.159 -0.711 0.547 N3 F7R 19 F7R N4 N4 N 0 1 N N N -7.938 20.991 25.653 -7.150 0.065 -0.411 N4 F7R 20 F7R OP3 O7 O 0 1 N Y N -2.070 26.319 20.220 5.161 -0.035 1.798 OP4 F7R 21 F7R H1 H1 H 0 1 N N N -4.840 23.295 23.209 -3.311 2.461 -0.442 H1 F7R 22 F7R H2 H2 H 0 1 N N N -6.617 23.285 24.950 -5.679 2.203 -1.005 H2 F7R 23 F7R H3 H3 H 0 1 N N N 0.276 26.796 18.900 5.850 -1.090 -0.772 H3 F7R 24 F7R H4 H4 H 0 1 N N N -3.606 24.687 17.477 2.481 1.391 -1.278 H4 F7R 25 F7R H5 H5 H 0 1 N N N -3.381 22.954 17.893 3.181 -0.023 -2.103 H5 F7R 26 F7R H6 H6 H 0 1 N N N -3.962 25.082 19.951 0.739 -0.153 -2.224 H6 F7R 27 F7R H7 H7 H 0 1 N N N -5.828 24.847 18.132 0.400 -2.333 -1.023 H7 F7R 28 F7R H8 H8 H 0 1 N N N -6.231 23.343 19.028 1.919 -2.280 -1.949 H8 F7R 29 F7R H9 H9 H 0 1 N Y N -7.234 25.248 19.973 2.261 -3.075 0.277 H9 F7R 30 F7R H10 H10 H 0 1 N N N -2.987 23.106 20.779 0.825 0.546 0.611 H10 F7R 31 F7R H11 H11 H 0 1 N N N -3.650 20.171 21.483 -1.553 1.755 0.994 H11 F7R 32 F7R H12 H12 H 0 1 N N N -2.973 21.682 22.178 -1.580 0.149 1.761 H12 F7R 33 F7R H13 H13 H 0 1 N N N -8.337 20.085 25.792 -7.633 0.762 -0.883 H13 F7R 34 F7R H14 H14 H 0 1 N N N -8.280 21.773 26.174 -7.606 -0.752 -0.153 H14 F7R 35 F7R H15 H15 H 0 1 N N N -2.591 27.107 20.116 6.043 0.243 2.083 H15 F7R 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 F7R OP2 P DOUB N N 1 F7R "C3'" "O3'" SING N N 2 F7R "C3'" "C2'" SING N N 3 F7R "O3'" P SING N N 4 F7R P OP1 SING N N 5 F7R "C1'" "C2'" SING N N 6 F7R "C1'" "O1'" SING N N 7 F7R "C2'" "N2'" SING N N 8 F7R "N2'" C2A SING N N 9 F7R O2A C2A DOUB N N 10 F7R C2A C2B SING N N 11 F7R C2B N1 SING N N 12 F7R O2 C2 DOUB N N 13 F7R N1 C2 SING N N 14 F7R N1 C6 SING N N 15 F7R C2 N3 SING N N 16 F7R C6 C5 DOUB N N 17 F7R N3 C4 DOUB N N 18 F7R C5 C4 SING N N 19 F7R C4 N4 SING N N 20 F7R P OP3 SING N N 21 F7R C6 H1 SING N N 22 F7R C5 H2 SING N N 23 F7R OP1 H3 SING N N 24 F7R "C3'" H4 SING N N 25 F7R "C3'" H5 SING N N 26 F7R "C2'" H6 SING N N 27 F7R "C1'" H7 SING N N 28 F7R "C1'" H8 SING N N 29 F7R "O1'" H9 SING N N 30 F7R "N2'" H10 SING N N 31 F7R C2B H11 SING N N 32 F7R C2B H12 SING N N 33 F7R N4 H13 SING N N 34 F7R N4 H14 SING N N 35 F7R OP3 H15 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 F7R InChI InChI 1.03 "InChI=1S/C9H15N4O7P/c10-7-1-2-13(9(16)12-7)3-8(15)11-6(4-14)5-20-21(17,18)19/h1-2,6,14H,3-5H2,(H,11,15)(H2,10,12,16)(H2,17,18,19)/t6-/m1/s1" F7R InChIKey InChI 1.03 WZINKHQUEQYIEP-ZCFIWIBFSA-N F7R SMILES_CANONICAL CACTVS 3.385 "NC1=NC(=O)N(CC(=O)N[C@H](CO)CO[P](O)(O)=O)C=C1" F7R SMILES CACTVS 3.385 "NC1=NC(=O)N(CC(=O)N[CH](CO)CO[P](O)(O)=O)C=C1" F7R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1=CN(C(=O)N=C1N)CC(=O)N[C@H](CO)COP(=O)(O)O" F7R SMILES "OpenEye OEToolkits" 2.0.7 "C1=CN(C(=O)N=C1N)CC(=O)NC(CO)COP(=O)(O)O" # _pdbx_chem_comp_identifier.comp_id F7R _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "[(2~{R})-2-[2-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)ethanoylamino]-3-oxidanyl-propyl] 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 F7R "Create component" 2020-04-07 PDBJ F7R "Modify internal type" 2020-10-29 PDBJ F7R "Modify linking type" 2020-10-29 PDBJ F7R "Modify atom id" 2020-11-18 PDBJ F7R "Initial release" 2020-11-25 RCSB ##