Abstract:
:A simple theoretical analysis shows that specificity of double-stranded DNA (dsDNA) targeting by homopyrimidine peptide nucleic acids (hpyPNAs) is a kinetically controlled phenomenon. Our computations give the optimum conditions for sequence-specific targeting of dsDNA by hpyPNAs. The analysis shows that, in agreement with the available experimental data, kinetic factors play a crucial role in the selective targeting of dsDNA by hpyPNAs. The selectivity may be completely lost if PNA concentration is too high and/or during prolonged incubation of dsDNA with PNA. However, quantitative estimations show that the experimentally observed differences in the kinetic constants for hpyPNA binding with the correct and mismatched DNA sites are sufficient for sequence-specific targeting of long genomic DNA by hpyPNAs with a high yield under appropriate experimental conditions. Differential dissociation of hpyPNA/dsDNA complexes is shown to enhance the selectivity of DNA targeting by PNA.
journal_name
Biophys Jjournal_title
Biophysical journalauthors
Demidov VV,Yavnilovich MV,Frank-Kamenetskii MDdoi
10.1016/S0006-3495(97)78918-5subject
Has Abstractpub_date
1997-06-01 00:00:00pages
2763-9issue
6eissn
0006-3495issn
1542-0086pii
S0006-3495(97)78918-5journal_volume
72pub_type
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