DNA and RNA binding properties of an arginine-based ′extended Chiral Box′ Peptide Nucleic Acid

Tetrahedron Letters

Volumn 52, Issue 2, 2011, Pages 300-304

  Calabretta, Alessandro ^a   Tedeschi, Tullia ^a   Corradini, Roberto ^a   Marchelli, Rosangela ^a   Sforza, Stefano ^a  

^a UNIVERSITY OF PARMA   (Italy)

Author keywords

Backbone modification; Binding selectivity; Chiral PNA; DNA recognition; RNA recognition

Indexed keywords

ARGININE; DNA; OLIGONUCLEOTIDE; PEPTIDE NUCLEIC ACID; RNA;

ARTICLE; CIRCULAR DICHROISM; DNA BINDING; RNA BINDING;

EID: 78650012369     PISSN: 00404039     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tetlet.2010.11.034     Document Type: Article

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24. 2. Crude yield: 80%. The crude product was purified by RP-HPLC in gradient elution: from 100% A to 100% B in 30 min. ESI-MS calcd m/z: 1042.1 (MH 3 3 + ), 781.8 (MH 4 4 + ), 625.6 (MH 5 5 + ), 521.5 (MH 6 6 + ) found m/z 1042.0, 781.6, 625.3, 521.1.
25. -1) for the nucleobases: T 8600, C 6600, A 13700, and G 11,700. Hybrid solutions containing PNA (5 μM) and complementary PNA (5 μM), DNA (5 μM) or RNA (5 μM) were prepared in a phosphate buffer (10 mM phosphate, 100 mM NaCl, 0.1 mM EDTA, pH 7) and incubated at 90 °C for 5 min, then slowly cooled to room temperature. UV melting curves were obtained on a Lambda Bio spectrophotometer (Perkin Elmer, Waltham, MA, USA) by heating the samples (1 °C/min) and recording the UV signal variation at 260 nm. Melting temperatures were calculated as the maximum of the first derivatives of the melting curves. CD melting curves were recorded on a J715 spectropolarimeter (Jasco, Tokyo, Japan) by heating the samples (1 °C/min) and measuring the ellipticity variation at 258 nm from 15 to 90 °C. All CD curves were treated with noise reduction software and corrected for the drift by subtracting a blank spectrum. Melting temperatures were calculated as the minimum (given the hyperdichroic effect upon hybridization) of the first derivatives of the melting curves.
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