data_EWC # _chem_comp.id EWC _chem_comp.name "[(2~{R},3~{S},5~{R})-5-[(5~{S})-7-azanyl-2,4,9-tris(oxidanylidene)-1,3,6,8-tetrazaspiro[4.4]non-7-en-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" _chem_comp.type "DNA linking" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H14 N5 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-02-12 _chem_comp.pdbx_modified_date 2021-06-04 _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 379.220 _chem_comp.one_letter_code ? _chem_comp.three_letter_code EWC _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 6LWD _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 EWC P P1 P 0 1 N N N -3.839 18.853 -28.821 -4.905 0.883 0.038 P EWC 1 EWC OP1 O1 O 0 1 N N N -4.234 19.206 -27.410 -6.052 -0.105 -0.511 OP1 EWC 2 EWC OP2 O2 O 0 1 N N N -4.559 19.660 -29.854 -4.957 0.927 1.516 OP2 EWC 3 EWC "O5'" O3 O 0 1 N N N -4.016 17.282 -29.019 -3.462 0.344 -0.433 "O5'" EWC 4 EWC "C5'" C1 C 0 1 N N N -3.421 16.648 -30.146 -2.913 -0.898 0.013 "C5'" EWC 5 EWC "C4'" C2 C 0 1 N N R -4.503 16.046 -30.985 -1.536 -1.103 -0.623 "C4'" EWC 6 EWC "C3'" C3 C 0 1 N N S -4.817 14.610 -30.616 -0.976 -2.496 -0.255 "C3'" EWC 7 EWC "C2'" C4 C 0 1 N N N -3.887 13.842 -31.520 0.538 -2.253 -0.064 "C2'" EWC 8 EWC "C1'" C5 C 0 1 N N R -3.906 14.701 -32.776 0.713 -0.743 -0.338 "C1'" EWC 9 EWC "O4'" O4 O 0 1 N N N -4.032 16.042 -32.318 -0.584 -0.166 -0.074 "O4'" EWC 10 EWC N9 N1 N 0 1 N N N -2.771 14.487 -33.732 1.718 -0.174 0.564 N9 EWC 11 EWC C8 C6 C 0 1 N N N -2.788 13.993 -34.964 1.664 -0.127 1.911 C8 EWC 12 EWC O23 O5 O 0 1 N N N -3.906 13.608 -35.444 0.738 -0.564 2.566 O23 EWC 13 EWC N7 N2 N 0 1 N N N -1.616 13.900 -35.632 2.746 0.455 2.444 N7 EWC 14 EWC C5 C7 C 0 1 N N N -0.733 14.404 -34.767 3.620 0.848 1.491 C5 EWC 15 EWC C4 C8 C 0 1 N N R -1.346 14.854 -33.486 2.984 0.452 0.186 C4 EWC 16 EWC C6 C9 C 0 1 N N N -1.076 16.318 -33.273 3.864 -0.485 -0.599 C6 EWC 17 EWC O6 O6 O 0 1 N N N -1.494 17.250 -34.089 4.282 -1.570 -0.246 O6 EWC 18 EWC N1 N3 N 0 1 N N N -0.354 16.543 -32.137 4.086 0.128 -1.763 N1 EWC 19 EWC C2 C10 C 0 1 N N N -0.159 15.286 -31.633 3.488 1.300 -1.837 C2 EWC 20 EWC N2 N4 N 0 1 N N N 0.520 15.043 -30.481 3.561 2.121 -2.921 N2 EWC 21 EWC N3 N5 N 0 1 N N N -0.690 14.267 -32.333 2.789 1.597 -0.703 N3 EWC 22 EWC O24 O7 O 0 1 N N N 0.520 14.510 -35.017 4.686 1.402 1.653 O24 EWC 23 EWC "O3'" O8 O 0 1 N N N -6.121 14.269 -31.044 -1.207 -3.424 -1.316 "O3'" EWC 24 EWC O1 O9 O 0 1 N Y N -2.260 19.080 -29.044 -5.143 2.362 -0.552 O1 EWC 25 EWC H1 H1 H 0 1 N N N -4.887 19.896 -27.427 -6.077 -0.182 -1.474 H1 EWC 26 EWC H2 H2 H 0 1 N N N -2.734 15.859 -29.807 -2.813 -0.883 1.098 H2 EWC 27 EWC H3 H3 H 0 1 N N N -2.864 17.390 -30.737 -3.573 -1.714 -0.280 H3 EWC 28 EWC H4 H4 H 0 1 N N N -5.417 16.652 -30.897 -1.599 -0.993 -1.705 H4 EWC 29 EWC H5 H5 H 0 1 N N N -4.630 14.404 -29.552 -1.426 -2.855 0.671 H5 EWC 30 EWC H6 H6 H 0 1 N N N -4.267 12.829 -31.720 0.837 -2.493 0.957 H6 EWC 31 EWC H7 H7 H 0 1 N N N -2.875 13.777 -31.093 1.112 -2.843 -0.778 H7 EWC 32 EWC H8 H8 H 0 1 N N N -4.829 14.444 -33.317 0.998 -0.577 -1.377 H8 EWC 33 EWC H9 H9 H 0 1 N N N -1.451 13.541 -36.551 2.885 0.579 3.396 H9 EWC 34 EWC H11 H11 H 0 1 N N N 0.905 15.803 -29.958 4.076 1.854 -3.698 H11 EWC 35 EWC H12 H12 H 0 1 N N N 0.634 14.104 -30.156 3.097 2.974 -2.916 H12 EWC 36 EWC H13 H13 H 0 1 N N N -6.760 14.725 -30.509 -0.876 -4.315 -1.138 H13 EWC 37 EWC H14 H14 H 0 1 N N N -2.125 19.671 -29.775 -5.994 2.750 -0.308 H14 EWC 38 EWC H10 H10 H 0 1 N N N -0.642 13.295 -32.103 2.272 2.398 -0.525 H10 EWC 39 # # 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 EWC N7 C8 SING N N 1 EWC N7 C5 SING N N 2 EWC O23 C8 DOUB N N 3 EWC O24 C5 DOUB N N 4 EWC C8 N9 SING N N 5 EWC C5 C4 SING N N 6 EWC O6 C6 DOUB N N 7 EWC N9 C4 SING N N 8 EWC N9 "C1'" SING N N 9 EWC C4 C6 SING N N 10 EWC C4 N3 SING N N 11 EWC C6 N1 SING N N 12 EWC "C1'" "O4'" SING N N 13 EWC "C1'" "C2'" SING N N 14 EWC N3 C2 SING N N 15 EWC "O4'" "C4'" SING N N 16 EWC N1 C2 DOUB N N 17 EWC C2 N2 SING N N 18 EWC "C2'" "C3'" SING N N 19 EWC "O3'" "C3'" SING N N 20 EWC "C4'" "C3'" SING N N 21 EWC "C4'" "C5'" SING N N 22 EWC "C5'" "O5'" SING N N 23 EWC OP2 P DOUB N N 24 EWC "O5'" P SING N N 25 EWC P OP1 SING N N 26 EWC P O1 SING N N 27 EWC OP1 H1 SING N N 28 EWC "C5'" H2 SING N N 29 EWC "C5'" H3 SING N N 30 EWC "C4'" H4 SING N N 31 EWC "C3'" H5 SING N N 32 EWC "C2'" H6 SING N N 33 EWC "C2'" H7 SING N N 34 EWC "C1'" H8 SING N N 35 EWC N7 H9 SING N N 36 EWC N2 H11 SING N N 37 EWC N2 H12 SING N N 38 EWC "O3'" H13 SING N N 39 EWC O1 H14 SING N N 40 EWC N3 H10 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 EWC InChI InChI 1.03 "InChI=1S/C10H14N5O9P/c11-8-12-6(17)10(14-8)7(18)13-9(19)15(10)5-1-3(16)4(24-5)2-23-25(20,21)22/h3-5,16H,1-2H2,(H,13,18,19)(H2,20,21,22)(H3,11,12,14,17)/t3-,4+,5+,10+/m0/s1" EWC InChIKey InChI 1.03 YZGJDNWNYOGONM-XPCBYELVSA-N EWC SMILES_CANONICAL CACTVS 3.385 "NC1=NC(=O)[C@@]2(N1)N([C@H]3C[C@H](O)[C@@H](CO[P](O)(O)=O)O3)C(=O)NC2=O" EWC SMILES CACTVS 3.385 "NC1=NC(=O)[C]2(N1)N([CH]3C[CH](O)[CH](CO[P](O)(O)=O)O3)C(=O)NC2=O" EWC SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1[C@@H]([C@H](O[C@H]1N2C(=O)NC(=O)[C@@]23C(=O)N=C(N3)N)COP(=O)(O)O)O" EWC SMILES "OpenEye OEToolkits" 2.0.7 "C1C(C(OC1N2C(=O)NC(=O)C23C(=O)N=C(N3)N)COP(=O)(O)O)O" # _pdbx_chem_comp_identifier.comp_id EWC _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~{R})-5-[(5~{S})-7-azanyl-2,4,9-tris(oxidanylidene)-1,3,6,8-tetrazaspiro[4.4]non-7-en-1-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 EWC "Create component" 2020-02-12 PDBJ EWC "Modify linking type" 2020-02-12 PDBJ EWC "Initial release" 2021-06-09 RCSB ##