Journal
CHEMBIOCHEM
Volume 15, Issue 14, Pages 2045-2049Publisher
WILEY-V C H VERLAG GMBH
DOI: 10.1002/cbic.201402182
Keywords
enzymatic digestion; fluorescence; fluorothiouridine; interstrand photo-crosslinking; oligonucleotides
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The formation of a fluorescent photoadduct between 5-fluoro-4-thiouridine (U-FS), in the sequence context 5'-A(FS)UA-3' and incorporated into a synthetic oligonucleotide either at its 3'- or 5'-end, and one of the thymines of the TAT motif in a complementary target DNA strand led to photo-crosslinking of the two strands for several oligonucleotide constructs. Enzymatic digestion, MS, UV, and fluorescence spectral analyses of the interstrand crosslinked oligonucleotides revealed the identity of the thymidine that participates in the photo-crosslinking reaction as well as the diastereomeric structures of the crosslinks. The proposed pathways of interstrand photo-crosslinking are supported by experiments with isotopically labeled oligonucleotide constructs and visualized by means of molecular dynamics simulations.
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