data_XCL # _chem_comp.id XCL _chem_comp.name "[(1S,4R,6R)-6-HYDROXY-4-(CYTOSIN-9-YL)CYCLOHEX-2-EN-1-YL]METHYL DIHYDROGEN PHOSPHATE" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C11 H16 N3 O6 P" _chem_comp.mon_nstd_parent_comp_id DC _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2006-05-19 _chem_comp.pdbx_modified_date 2011-06-04 _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 317.235 _chem_comp.one_letter_code C _chem_comp.three_letter_code XCL _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 ? _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 XCL P P P 0 1 N N N 16.022 -8.955 34.779 4.207 0.653 -0.118 P XCL 1 XCL OP1 O1P O 0 1 N N N 16.122 -8.411 36.104 4.524 0.585 1.326 OP1 XCL 2 XCL OP2 O2P O 0 1 N N N 14.694 -9.081 34.140 5.554 0.441 -0.974 OP2 XCL 3 XCL "O5'" O5* O 0 1 N N N 16.673 -10.461 34.739 3.148 -0.502 -0.490 "O5'" XCL 4 XCL "C5'" C5* C 0 1 N N N 17.918 -10.895 35.279 2.028 -0.331 0.381 "C5'" XCL 5 XCL "C4'" C4* C 0 1 N N S 18.181 -12.335 34.865 0.978 -1.403 0.078 "C4'" XCL 6 XCL "C6'" C6* C 0 1 N N N 18.258 -12.323 33.400 0.453 -1.202 -1.313 "C6'" XCL 7 XCL "C7'" C7* C 0 1 N N N 17.789 -13.255 32.587 -0.795 -1.288 -1.634 "C7'" XCL 8 XCL "C3'" C3* C 0 1 N N R 16.879 -13.117 35.241 -0.162 -1.296 1.092 "C3'" XCL 9 XCL "O3'" O3* O 0 1 N N N 17.023 -13.217 36.643 0.289 -1.732 2.376 "O3'" XCL 10 XCL "C2'" C2* C 0 1 N N N 16.925 -14.492 34.571 -1.316 -2.190 0.621 "C2'" XCL 11 XCL "C1'" C1* C 0 1 N N R 16.672 -14.237 33.043 -1.898 -1.593 -0.663 "C1'" XCL 12 XCL C6 C6 C 0 1 N N N 14.723 -12.724 32.776 -1.922 0.751 0.038 C6 XCL 13 XCL C5 C5 C 0 1 N N N 13.433 -12.484 32.507 -2.598 1.889 0.327 C5 XCL 14 XCL C4 C4 C 0 1 N N N 12.619 -13.614 32.181 -4.005 1.889 0.239 C4 XCL 15 XCL N4 N4 N 0 1 N N N 11.322 -13.450 31.902 -4.716 3.029 0.532 N4 XCL 16 XCL N3 N3 N 0 1 N N N 13.124 -14.839 32.148 -4.638 0.785 -0.135 N3 XCL 17 XCL C2 C2 C 0 1 N N N 14.425 -15.080 32.421 -3.959 -0.325 -0.421 C2 XCL 18 XCL O2 O2 O 0 1 N N N 14.887 -16.231 32.388 -4.565 -1.327 -0.763 O2 XCL 19 XCL N1 N1 N 0 1 N N N 15.237 -13.986 32.742 -2.617 -0.358 -0.341 N1 XCL 20 XCL OP3 O3P O 0 1 N Y N 16.710 -7.960 34.035 3.573 2.092 -0.462 OP3 XCL 21 XCL HOP2 2HOP H 0 0 N N N 14.021 -9.108 34.810 6.160 1.151 -0.722 HOP2 XCL 22 XCL "H5'" 1H5* H 0 1 N N N 17.882 -10.832 36.377 1.594 0.657 0.225 "H5'" XCL 23 XCL "H5''" 2H5* H 0 0 N N N 18.725 -10.252 34.899 2.355 -0.425 1.416 "H5''" XCL 24 XCL "H4'" H4* H 0 1 N N N 19.083 -12.766 35.325 1.437 -2.389 0.152 "H4'" XCL 25 XCL "H6'" H6* H 0 1 N N N 18.743 -11.473 32.942 1.163 -0.970 -2.094 "H6'" XCL 26 XCL "H7'" H7* H 0 1 N N N 18.189 -13.336 31.587 -1.064 -1.133 -2.668 "H7'" XCL 27 XCL "H3'" H3* H 0 1 N N N 15.930 -12.655 34.932 -0.502 -0.262 1.155 "H3'" XCL 28 XCL "HO3'" H3T H 0 0 N Y N 17.946 -13.239 36.866 -0.466 -1.661 2.977 "HO3'" XCL 29 XCL "H2'" 1H2* H 0 1 N N N 16.170 -15.171 34.995 -2.088 -2.229 1.389 "H2'" XCL 30 XCL "H2''" 2H2* H 0 0 N N N 17.904 -14.967 34.728 -0.943 -3.195 0.421 "H2''" XCL 31 XCL "H1'" H1* H 0 1 N N N 16.789 -15.112 32.387 -2.588 -2.306 -1.112 "H1'" XCL 32 XCL H6 H6 H 0 1 N N N 15.372 -11.897 33.026 -0.844 0.725 0.103 H6 XCL 33 XCL H5 H5 H 0 1 N N N 13.026 -11.484 32.535 -2.067 2.780 0.630 H5 XCL 34 XCL HN41 1HN4 H 0 0 N N N 10.837 -12.576 31.897 -5.684 3.027 0.466 HN41 XCL 35 XCL HN42 2HN4 H 0 0 N N N 10.913 -14.340 31.699 -4.251 3.834 0.808 HN42 XCL 36 XCL HOP3 3HOP H 0 0 N N N 16.864 -7.202 34.586 3.382 2.095 -1.409 HOP3 XCL 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 XCL P OP1 DOUB N N 1 XCL P OP2 SING N N 2 XCL P "O5'" SING N N 3 XCL P OP3 SING N N 4 XCL OP2 HOP2 SING N N 5 XCL "O5'" "C5'" SING N N 6 XCL "C5'" "C4'" SING N N 7 XCL "C5'" "H5'" SING N N 8 XCL "C5'" "H5''" SING N N 9 XCL "C4'" "C6'" SING N N 10 XCL "C4'" "C3'" SING N N 11 XCL "C4'" "H4'" SING N N 12 XCL "C6'" "C7'" DOUB N N 13 XCL "C6'" "H6'" SING N N 14 XCL "C7'" "C1'" SING N N 15 XCL "C7'" "H7'" SING N N 16 XCL "C3'" "O3'" SING N N 17 XCL "C3'" "C2'" SING N N 18 XCL "C3'" "H3'" SING N N 19 XCL "O3'" "HO3'" SING N N 20 XCL "C2'" "C1'" SING N N 21 XCL "C2'" "H2'" SING N N 22 XCL "C2'" "H2''" SING N N 23 XCL "C1'" N1 SING N N 24 XCL "C1'" "H1'" SING N N 25 XCL C6 C5 DOUB N N 26 XCL C6 N1 SING N N 27 XCL C6 H6 SING N N 28 XCL C5 C4 SING N N 29 XCL C5 H5 SING N N 30 XCL C4 N4 SING N N 31 XCL C4 N3 DOUB N N 32 XCL N4 HN41 SING N N 33 XCL N4 HN42 SING N N 34 XCL N3 C2 SING N N 35 XCL C2 O2 DOUB N N 36 XCL C2 N1 SING N N 37 XCL OP3 HOP3 SING N N 38 # 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 XCL SMILES ACDLabs 10.04 "O=C1N=C(C=CN1C2C=CC(COP(=O)(O)O)C(O)C2)N" XCL SMILES_CANONICAL CACTVS 3.341 "NC1=NC(=O)N(C=C1)[C@@H]2C[C@@H](O)[C@H](CO[P](O)(O)=O)C=C2" XCL SMILES CACTVS 3.341 "NC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CO[P](O)(O)=O)C=C2" XCL SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1[C@H](C=C[C@H]([C@@H]1O)COP(=O)(O)O)N2C=CC(=NC2=O)N" XCL SMILES "OpenEye OEToolkits" 1.5.0 "C1C(C=CC(C1O)COP(=O)(O)O)N2C=CC(=NC2=O)N" XCL InChI InChI 1.03 "InChI=1S/C11H16N3O6P/c12-10-3-4-14(11(16)13-10)8-2-1-7(9(15)5-8)6-20-21(17,18)19/h1-4,7-9,15H,5-6H2,(H2,12,13,16)(H2,17,18,19)/t7-,8-,9+/m0/s1" XCL InChIKey InChI 1.03 FKEUOBXNNLEVNG-XHNCKOQMSA-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 XCL "SYSTEMATIC NAME" ACDLabs 10.04 "[(1S,4R,6R)-4-(4-amino-2-oxopyrimidin-1(2H)-yl)-6-hydroxycyclohex-2-en-1-yl]methyl dihydrogen phosphate" XCL "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(1S,4R,6R)-4-(4-amino-2-oxo-pyrimidin-1-yl)-6-hydroxy-1-cyclohex-2-enyl]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 XCL "Create component" 2006-05-19 PDBJ XCL "Modify descriptor" 2011-06-04 RCSB #