data_CFL # _chem_comp.id CFL _chem_comp.name "4-amino-1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)pyrimidin-2(1H)-one" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C9 H13 F N3 O7 P" _chem_comp.mon_nstd_parent_comp_id DC _chem_comp.pdbx_synonyms "2'-FLUORO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2006-09-07 _chem_comp.pdbx_modified_date 2020-06-17 _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 325.188 _chem_comp.one_letter_code C _chem_comp.three_letter_code CFL _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 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 CFL O3P O3P O 0 1 N Y N 3.753 9.812 -1.585 -5.158 -0.141 0.225 O3P CFL 1 CFL P P P 0 1 N N N 4.389 9.581 -3.052 -4.058 1.015 0.011 P CFL 2 CFL O1P O1P O 0 1 N N N 5.104 10.816 -3.438 -4.697 2.209 -0.859 O1P CFL 3 CFL O2P O2P O 0 1 N N N 3.326 9.043 -3.925 -3.631 1.538 1.328 O2P CFL 4 CFL "O5'" O5* O 0 1 N N N 5.481 8.413 -2.805 -2.785 0.407 -0.764 "O5'" CFL 5 CFL "C5'" C5* C 0 1 N N N 6.836 8.711 -2.399 -2.195 -0.561 0.106 "C5'" CFL 6 CFL "C4'" C4* C 0 1 N N R 7.646 7.427 -2.191 -0.972 -1.180 -0.574 "C4'" CFL 7 CFL "O4'" O4* O 0 1 N N N 6.880 6.475 -1.451 0.067 -0.190 -0.739 "O4'" CFL 8 CFL "C3'" C3* C 0 1 N N R 8.010 6.773 -3.522 -0.344 -2.265 0.329 "C3'" CFL 9 CFL "O3'" O3* O 0 1 N N N 9.395 6.976 -3.841 -0.779 -3.565 -0.074 "O3'" CFL 10 CFL "C2'" C2* C 0 1 N N S 7.701 5.314 -3.355 1.178 -2.108 0.102 "C2'" CFL 11 CFL "C1'" C1* C 0 1 N N R 7.237 5.168 -1.908 1.287 -0.944 -0.908 "C1'" CFL 12 CFL N1 N1 N 0 1 N N N 6.063 4.271 -1.799 2.450 -0.108 -0.600 N1 CFL 13 CFL C2 C2 C 0 1 N N N 6.253 2.994 -1.285 2.503 0.560 0.567 C2 CFL 14 CFL O2 O2 O 0 1 N N N 7.370 2.623 -0.932 1.579 0.462 1.358 O2 CFL 15 CFL N3 N3 N 0 1 N N N 5.169 2.176 -1.183 3.548 1.327 0.873 N3 CFL 16 CFL C4 C4 C 0 1 N N N 3.956 2.588 -1.569 4.566 1.452 0.032 C4 CFL 17 CFL N4 N4 N 0 1 N N N 2.921 1.769 -1.447 5.640 2.248 0.358 N4 CFL 18 CFL C5 C5 C 0 1 N N N 3.756 3.892 -2.099 4.538 0.770 -1.202 C5 CFL 19 CFL C6 C6 C 0 1 N N N 4.819 4.699 -2.196 3.472 -0.011 -1.496 C6 CFL 20 CFL F F F 0 1 N N N 6.721 4.932 -4.226 1.821 -1.780 1.300 F CFL 21 CFL HO3P HO3P H 0 0 N N N 4.450 9.857 -0.941 -5.409 -0.454 -0.655 HO3P CFL 22 CFL HO1P HO1P H 0 0 N N N 5.257 11.348 -2.666 -5.454 2.544 -0.361 HO1P CFL 23 CFL "H5'1" 1H5* H 0 0 N N N 7.318 9.314 -3.182 -2.922 -1.342 0.327 "H5'1" CFL 24 CFL "H5'2" 2H5* H 0 0 N N N 6.803 9.262 -1.447 -1.889 -0.077 1.034 "H5'2" CFL 25 CFL "H4'" H4* H 0 1 N N N 8.560 7.711 -1.650 -1.250 -1.604 -1.539 "H4'" CFL 26 CFL "H3'" H3* H 0 1 N N N 7.441 7.213 -4.354 -0.596 -2.086 1.374 "H3'" CFL 27 CFL "HO3'" HO3* H 0 0 N N N 9.500 7.021 -4.784 -0.357 -4.198 0.522 "HO3'" CFL 28 CFL "H2'" H2* H 0 1 N N N 8.572 4.677 -3.567 1.598 -3.022 -0.318 "H2'" CFL 29 CFL "H1'" H1* H 0 1 N N N 8.043 4.727 -1.303 1.357 -1.329 -1.925 "H1'" CFL 30 CFL HN41 1HN4 H 0 0 N N N 3.230 0.899 -1.062 5.654 2.719 1.206 HN41 CFL 31 CFL HN42 2HN4 H 0 0 N N N 1.979 1.987 -1.701 6.384 2.334 -0.257 HN42 CFL 32 CFL H5 H5 H 0 1 N N N 2.777 4.221 -2.414 5.359 0.861 -1.897 H5 CFL 33 CFL H6 H6 H 0 1 N N N 4.698 5.697 -2.590 3.429 -0.547 -2.432 H6 CFL 34 # # 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 CFL O3P P SING N N 1 CFL O3P HO3P SING N N 2 CFL P O1P SING N N 3 CFL P O2P DOUB N N 4 CFL P "O5'" SING N N 5 CFL O1P HO1P SING N N 6 CFL "O5'" "C5'" SING N N 7 CFL "C5'" "C4'" SING N N 8 CFL "C5'" "H5'1" SING N N 9 CFL "C5'" "H5'2" SING N N 10 CFL "C4'" "O4'" SING N N 11 CFL "C4'" "C3'" SING N N 12 CFL "C4'" "H4'" SING N N 13 CFL "O4'" "C1'" SING N N 14 CFL "C3'" "O3'" SING N N 15 CFL "C3'" "C2'" SING N N 16 CFL "C3'" "H3'" SING N N 17 CFL "O3'" "HO3'" SING N N 18 CFL "C2'" "C1'" SING N N 19 CFL "C2'" F SING N N 20 CFL "C2'" "H2'" SING N N 21 CFL "C1'" N1 SING N N 22 CFL "C1'" "H1'" SING N N 23 CFL N1 C2 SING N N 24 CFL N1 C6 SING N N 25 CFL C2 O2 DOUB N N 26 CFL C2 N3 SING N N 27 CFL N3 C4 DOUB N N 28 CFL C4 N4 SING N N 29 CFL C4 C5 SING N N 30 CFL N4 HN41 SING N N 31 CFL N4 HN42 SING N N 32 CFL C5 C6 DOUB N N 33 CFL C5 H5 SING N N 34 CFL C6 H6 SING N N 35 # # 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 CFL SMILES ACDLabs 10.04 "O=C1N=C(N)C=CN1C2OC(C(O)C2F)COP(=O)(O)O" CFL SMILES_CANONICAL CACTVS 3.341 "NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H]2F" CFL SMILES CACTVS 3.341 "NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2F" CFL SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)N=C1N)[C@H]2[C@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)F" CFL SMILES "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)N=C1N)C2C(C(C(O2)COP(=O)(O)O)O)F" CFL InChI InChI 1.03 "InChI=1S/C9H13FN3O7P/c10-6-7(14)4(3-19-21(16,17)18)20-8(6)13-2-1-5(11)12-9(13)15/h1-2,4,6-8,14H,3H2,(H2,11,12,15)(H2,16,17,18)/t4-,6+,7-,8-/m1/s1" CFL InChIKey InChI 1.03 KTAATIGPZHTGOP-PXBUCIJWSA-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 CFL "SYSTEMATIC NAME" ACDLabs 10.04 "4-amino-1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)pyrimidin-2(1H)-one" CFL "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,4S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-4-fluoro-3-hydroxy-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 CFL "Create component" 2006-09-07 RCSB CFL "Modify descriptor" 2011-06-04 RCSB CFL "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id CFL _pdbx_chem_comp_synonyms.name "2'-FLUORO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##