data_EIX # _chem_comp.id EIX _chem_comp.name "[(2R,3S,5S)-5-[(4R,5R)-6-azanyl-5-fluoranyl-5-methyl-2-oxidanylidene-4-sulfanyl-4H-pyrimidin-3-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" _chem_comp.type "DNA linking" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H17 F N3 O7 P S" _chem_comp.mon_nstd_parent_comp_id DC _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-04-20 _chem_comp.pdbx_modified_date 2022-11-25 _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 373.295 _chem_comp.one_letter_code C _chem_comp.three_letter_code EIX _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 7XI9 _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 EIX SG S1 S 0 1 N N N 110.607 97.887 97.122 2.313 0.175 -2.120 SG EIX 1 EIX "C1'" C1 C 0 1 N N S 110.376 100.566 95.889 0.516 -1.093 0.705 "C1'" EIX 2 EIX C2 C2 C 0 1 N N N 111.543 101.336 97.918 2.934 -1.071 0.962 C2 EIX 3 EIX "C2'" C3 C 0 1 N N N 111.124 100.428 94.577 0.448 -2.544 0.167 "C2'" EIX 4 EIX "C3'" C4 C 0 1 N N S 109.902 100.651 93.715 -1.082 -2.710 -0.041 "C3'" EIX 5 EIX C4 C5 C 0 1 N N N 112.228 99.749 99.377 4.281 0.721 0.398 C4 EIX 6 EIX "C4'" C6 C 0 1 N N R 109.141 101.767 94.414 -1.511 -1.290 -0.468 "C4'" EIX 7 EIX C5 C7 C 0 1 N N R 112.830 98.952 98.255 3.069 1.570 0.109 C5 EIX 8 EIX "C5'" C8 C 0 1 N N N 107.668 101.408 94.443 -2.855 -0.939 0.172 "C5'" EIX 9 EIX C6 C9 C 0 1 N N R 111.930 99.090 97.041 1.942 0.678 -0.417 C6 EIX 10 EIX CM5 C10 C 0 1 N N N 114.240 99.429 97.943 2.614 2.266 1.393 CM5 EIX 11 EIX F F1 F 0 1 N N N 112.898 97.686 98.603 3.392 2.533 -0.854 F EIX 12 EIX N1 N1 N 0 1 N N N 111.311 100.404 96.994 1.832 -0.511 0.432 N1 EIX 13 EIX N3 N2 N 0 1 N N N 111.889 100.942 99.140 4.144 -0.510 0.814 N3 EIX 14 EIX N4 N3 N 0 1 N N N 112.050 99.198 100.575 5.518 1.237 0.226 N4 EIX 15 EIX O2 O1 O 0 1 N N N 111.444 102.519 97.670 2.830 -2.105 1.595 O2 EIX 16 EIX "O3'" O2 O 0 1 N N N 110.179 100.873 92.344 -1.353 -3.656 -1.078 "O3'" EIX 17 EIX "O4'" O3 O 0 1 N N N 109.678 101.801 95.740 -0.503 -0.377 -0.011 "O4'" EIX 18 EIX "O5'" O4 O 0 1 N N N 106.989 102.285 95.327 -3.300 0.327 -0.318 "O5'" EIX 19 EIX OP3 O5 O 0 1 N Y N 104.986 100.748 95.578 -4.608 1.367 1.713 OP1 EIX 20 EIX OP2 O6 O 0 1 N N N 104.973 102.940 96.876 -4.925 2.358 -0.701 OP2 EIX 21 EIX P P1 P 0 1 N N N 105.409 102.159 95.544 -4.683 1.010 0.145 P EIX 22 EIX H1 H1 H 0 1 N N N 111.263 96.766 97.160 1.256 -0.591 -2.446 H1 EIX 23 EIX H2 H2 H 0 1 N N N 109.640 99.750 95.938 0.310 -1.076 1.775 H2 EIX 24 EIX H3 H3 H 0 1 N N N 111.572 99.433 94.440 0.985 -2.639 -0.777 H3 EIX 25 EIX H4 H4 H 0 1 N N N 111.895 101.200 94.438 0.824 -3.254 0.904 H4 EIX 26 EIX H5 H5 H 0 1 N N N 109.284 99.745 93.796 -1.572 -3.000 0.888 H5 EIX 27 EIX H6 H6 H 0 1 N N N 109.293 102.721 93.889 -1.594 -1.239 -1.554 H6 EIX 28 EIX H7 H7 H 0 1 N N N 107.246 101.506 93.432 -3.589 -1.704 -0.080 H7 EIX 29 EIX H8 H8 H 0 1 N N N 107.549 100.371 94.791 -2.740 -0.889 1.255 H8 EIX 30 EIX H9 H9 H 0 1 N N N 112.497 98.885 96.121 1.002 1.230 -0.397 H9 EIX 31 EIX H10 H10 H 0 1 N N N 114.871 99.319 98.837 1.737 2.878 1.184 H10 EIX 32 EIX H11 H11 H 0 1 N N N 114.658 98.826 97.123 2.363 1.516 2.143 H11 EIX 33 EIX H12 H12 H 0 1 N N N 114.211 100.487 97.643 3.419 2.899 1.768 H12 EIX 34 EIX H14 H14 H 0 1 N N N 111.639 99.731 101.314 5.624 2.151 -0.083 H14 EIX 35 EIX HO3 H15 H 0 1 N N N 110.654 100.129 91.992 -1.102 -4.563 -0.858 H15 EIX 36 EIX H16 H16 H 0 1 N N N 104.421 100.568 94.836 -3.896 1.980 1.943 H16 EIX 37 EIX H17 H17 H 0 1 N N N 104.417 103.675 96.645 -5.742 2.823 -0.475 H17 EIX 38 EIX OP1 O7 O 0 1 N N N 104.761 102.880 94.265 -5.801 0.070 -0.094 O1 EIX 39 EIX H18 H18 H 0 1 N N N 112.328 98.251 100.736 6.300 0.694 0.411 H18 EIX 40 # 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 EIX "O3'" "C3'" SING N N 1 EIX "C3'" "C4'" SING N N 2 EIX "C3'" "C2'" SING N N 3 EIX "C4'" "C5'" SING N N 4 EIX "C4'" "O4'" SING N N 5 EIX "C5'" "O5'" SING N N 6 EIX "C2'" "C1'" SING N N 7 EIX "O5'" P SING N N 8 EIX P OP3 SING N N 9 EIX P OP2 SING N N 10 EIX "O4'" "C1'" SING N N 11 EIX "C1'" N1 SING N N 12 EIX N1 C6 SING N N 13 EIX N1 C2 SING N N 14 EIX C6 SG SING N N 15 EIX C6 C5 SING N N 16 EIX O2 C2 DOUB N N 17 EIX C2 N3 SING N N 18 EIX CM5 C5 SING N N 19 EIX C5 F SING N N 20 EIX C5 C4 SING N N 21 EIX N3 C4 DOUB N N 22 EIX C4 N4 SING N N 23 EIX SG H1 SING N N 24 EIX "C1'" H2 SING N N 25 EIX "C2'" H3 SING N N 26 EIX "C2'" H4 SING N N 27 EIX "C3'" H5 SING N N 28 EIX "C4'" H6 SING N N 29 EIX "C5'" H7 SING N N 30 EIX "C5'" H8 SING N N 31 EIX C6 H9 SING N N 32 EIX CM5 H10 SING N N 33 EIX CM5 H11 SING N N 34 EIX CM5 H12 SING N N 35 EIX N4 H14 SING N N 36 EIX "O3'" HO3 SING N N 37 EIX OP3 H16 SING N N 38 EIX OP2 H17 SING N N 39 EIX P OP1 DOUB N N 40 EIX N4 H18 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 EIX InChI InChI 1.03 "InChI=1S/C10H17FN3O7PS/c1-10(11)7(12)13-9(16)14(8(10)23)6-2-4(15)5(21-6)3-20-22(17,18)19/h4-6,8,15,23H,2-3H2,1H3,(H2,12,13,16)(H2,17,18,19)/t4-,5+,6-,8+,10+/m0/s1" EIX InChIKey InChI 1.03 WAORVXYEMGHEBO-ULKLUNNDSA-N EIX SMILES_CANONICAL CACTVS 3.385 "C[C@]1(F)[C@@H](S)N([C@@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2)C(=O)N=C1N" EIX SMILES CACTVS 3.385 "C[C]1(F)[CH](S)N([CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2)C(=O)N=C1N" EIX SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@]1([C@H](N(C(=O)N=C1N)[C@@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O)S)F" EIX SMILES "OpenEye OEToolkits" 2.0.7 "CC1(C(N(C(=O)N=C1N)C2CC(C(O2)COP(=O)(O)O)O)S)F" # _pdbx_chem_comp_identifier.comp_id EIX _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},3~{S},5~{S})-5-[(4~{R},5~{R})-6-azanyl-5-fluoranyl-5-methyl-2-oxidanylidene-4-sulfanyl-4~{H}-pyrimidin-3-yl]-3-oxidanyl-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 EIX "Create component" 2022-04-20 PDBJ EIX "Initial release" 2022-11-30 RCSB #