data_XFC # _chem_comp.id XFC _chem_comp.name "4-amino-1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-2-oxo-1,2-dihydropyrimidine-5-carbaldehyde" _chem_comp.type "DNA linking" _chem_comp.pdbx_type HETAIN _chem_comp.formula "C10 H13 F N3 O8 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2016-09-28 _chem_comp.pdbx_modified_date 2016-11-04 _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 353.198 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XFC _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 5T2W _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # 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 XFC P P1 P 0 1 N N N 15.527 0.260 30.248 -4.578 1.172 -0.051 P XFC 1 XFC OP1 O1 O 0 1 N N N 13.944 0.243 30.313 -5.140 2.092 -1.247 OP1 XFC 2 XFC OP2 O2 O 0 1 N N N 15.815 -1.323 30.241 -5.632 0.228 0.383 OP2 XFC 3 XFC "O5'" O3 O 0 1 N N N 15.978 0.804 28.807 -3.296 0.345 -0.566 "O5'" XFC 4 XFC "C5'" C1 C 0 1 N N N 17.058 0.234 28.048 -2.633 -0.639 0.230 "C5'" XFC 5 XFC "C4'" C2 C 0 1 N N R 16.649 0.293 26.601 -1.462 -1.228 -0.559 "C4'" XFC 6 XFC "O4'" O4 O 0 1 N N N 15.515 -0.578 26.399 -0.422 -0.243 -0.738 "O4'" XFC 7 XFC "C1'" C3 C 0 1 N N R 14.679 -0.030 25.400 0.795 -0.960 -1.005 "C1'" XFC 8 XFC N1 N1 N 0 1 N N N 13.318 -0.586 25.550 1.933 -0.244 -0.425 N1 XFC 9 XFC C2 C4 C 0 1 N N N 12.482 -0.526 24.429 1.904 0.097 0.873 C2 XFC 10 XFC O2 O5 O 0 1 N N N 12.796 0.210 23.490 0.925 -0.200 1.537 O2 XFC 11 XFC N3 N2 N 0 1 N N N 11.349 -1.271 24.404 2.905 0.748 1.462 N3 XFC 12 XFC C4 C5 C 0 1 N N N 11.015 -2.061 25.429 3.988 1.090 0.780 C4 XFC 13 XFC N4 N3 N 0 1 N N N 9.992 -2.916 25.242 5.018 1.760 1.390 N4 XFC 14 XFC C5 C6 C 0 1 N N N 11.819 -2.049 26.651 4.064 0.737 -0.645 C5 XFC 15 XFC C6 C7 C 0 1 N N N 12.950 -1.301 26.667 2.992 0.055 -1.203 C6 XFC 16 XFC C5A C8 C 0 1 N N N 11.417 -2.754 27.866 5.236 1.090 -1.449 C5A XFC 17 XFC O5A O6 O 0 1 N N N 10.379 -3.385 27.987 6.203 1.599 -0.922 O5A XFC 18 XFC "C3'" C9 C 0 1 N N R 16.169 1.660 26.133 -0.766 -2.350 0.254 "C3'" XFC 19 XFC "C2'" C10 C 0 1 N N S 14.774 1.485 25.561 0.661 -2.349 -0.351 "C2'" XFC 20 XFC "F2'" F1 F 0 1 N N N 13.810 1.879 26.492 1.621 -2.512 0.654 "F2'" XFC 21 XFC "O3'" O7 O 0 1 N N N 17.090 2.284 25.245 -1.412 -3.607 0.044 "O3'" XFC 22 XFC O1 O8 O 0 1 N Y N 16.160 0.893 31.484 -4.150 2.106 1.189 O1 XFC 23 XFC H1 H1 H 0 1 N N N 13.637 -0.656 30.328 -5.914 2.619 -1.007 H1 XFC 24 XFC H2 H2 H 0 1 N N N 17.225 -0.810 28.352 -2.260 -0.176 1.143 H2 XFC 25 XFC H3 H3 H 0 1 N N N 17.979 0.814 28.205 -3.335 -1.433 0.486 H3 XFC 26 XFC H4 H4 H 0 1 N N N 17.491 -0.028 25.971 -1.802 -1.607 -1.523 H4 XFC 27 XFC H5 H5 H 0 1 N N N 15.065 -0.296 24.405 0.937 -1.069 -2.080 H5 XFC 28 XFC H6 H6 H 0 1 N N N 9.516 -2.941 24.363 4.926 2.055 2.310 H6 XFC 29 XFC H7 H7 H 0 1 N N N 9.708 -3.526 25.982 5.837 1.938 0.902 H7 XFC 30 XFC H8 H8 H 0 1 N N N 13.562 -1.266 27.556 3.005 -0.229 -2.245 H8 XFC 31 XFC H9 H9 H 0 1 N N N 12.084 -2.714 28.715 5.240 0.897 -2.512 H9 XFC 32 XFC H10 H10 H 0 1 N N N 16.073 2.291 27.029 -0.738 -2.102 1.315 H10 XFC 33 XFC H11 H11 H 0 1 N N N 14.674 1.994 24.591 0.755 -3.135 -1.101 H11 XFC 34 XFC H12 H12 H 0 1 N N N 17.937 2.360 25.668 -1.013 -4.341 0.532 H12 XFC 35 XFC H13 H13 H 0 1 N N N 16.595 0.222 31.997 -3.461 2.751 0.977 H13 XFC 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 XFC O2 C2 DOUB N N 1 XFC N3 C2 SING N N 2 XFC N3 C4 DOUB N N 3 XFC C2 N1 SING N N 4 XFC N4 C4 SING N N 5 XFC "O3'" "C3'" SING N N 6 XFC "C1'" N1 SING N N 7 XFC "C1'" "C2'" SING N N 8 XFC "C1'" "O4'" SING N N 9 XFC C4 C5 SING N N 10 XFC N1 C6 SING N N 11 XFC "C2'" "C3'" SING N N 12 XFC "C2'" "F2'" SING N N 13 XFC "C3'" "C4'" SING N N 14 XFC "O4'" "C4'" SING N N 15 XFC "C4'" "C5'" SING N N 16 XFC C5 C6 DOUB N N 17 XFC C5 C5A SING N N 18 XFC C5A O5A DOUB N N 19 XFC "C5'" "O5'" SING N N 20 XFC "O5'" P SING N N 21 XFC OP2 P DOUB N N 22 XFC P OP1 SING N N 23 XFC P O1 SING N N 24 XFC OP1 H1 SING N N 25 XFC "C5'" H2 SING N N 26 XFC "C5'" H3 SING N N 27 XFC "C4'" H4 SING N N 28 XFC "C1'" H5 SING N N 29 XFC N4 H6 SING N N 30 XFC N4 H7 SING N N 31 XFC C6 H8 SING N N 32 XFC C5A H9 SING N N 33 XFC "C3'" H10 SING N N 34 XFC "C2'" H11 SING N N 35 XFC "O3'" H12 SING N N 36 XFC O1 H13 SING N N 37 # 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 XFC SMILES ACDLabs 12.01 "P(O)(O)(=O)OCC2OC(N1C=C(C(=NC1=O)N)C=O)C(C2O)F" XFC InChI InChI 1.03 "InChI=1S/C10H13FN3O8P/c11-6-7(16)5(3-21-23(18,19)20)22-9(6)14-1-4(2-15)8(12)13-10(14)17/h1-2,5-7,9,16H,3H2,(H2,12,13,17)(H2,18,19,20)/t5-,6+,7-,9-/m1/s1" XFC InChIKey InChI 1.03 WSKADZNTLMTFQS-JVZYCSMKSA-N XFC SMILES_CANONICAL CACTVS 3.385 "NC1=NC(=O)N(C=C1C=O)[C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H]2F" XFC SMILES CACTVS 3.385 "NC1=NC(=O)N(C=C1C=O)[CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2F" XFC SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C1=C(C(=NC(=O)N1[C@H]2[C@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)F)N)C=O" XFC SMILES "OpenEye OEToolkits" 2.0.6 "C1=C(C(=NC(=O)N1C2C(C(C(O2)COP(=O)(O)O)O)F)N)C=O" # 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 XFC "SYSTEMATIC NAME" ACDLabs 12.01 "4-amino-1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-2-oxo-1,2-dihydropyrimidine-5-carbaldehyde" XFC "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[(2~{R},3~{R},4~{S},5~{R})-5-(4-azanyl-5-methanoyl-2-oxidanylidene-pyrimidin-1-yl)-4-fluoranyl-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 XFC "Create component" 2016-09-28 RCSB XFC "Other modification" 2016-09-28 RCSB XFC "Initial release" 2016-11-09 RCSB #