Interaction Mechanism of Trp-Arg Dipeptide with Calf Thymus DNA
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The interaction between Trp-Arg dipetide (WR) and calf thymus DNA (ctDNA) in pH 7.4 Tris-HCl buffer was investigated by multi-spectroscopic techniques and molecular modeling. The fluorescence spectroscopy and UV absorption spectroscopy indicated that WR interacted with ctDNA in a minor groove binding mode and the binding constant was 4.1 × 103. The ionic strength effect and single-stranded DNA (ssDNA) quenching effect further verified the minor groove binding mode. Circular dichroism spectroscopy (CD) was employed to measure the conformation change of ctDNA in the presence of WR. The molecular modeling results illustrated that electrostatic interaction and groove binding coexisted between them and the hydrogen bond and Van der Waals were main acting forces. All the above methods can be widely used to investigate the interaction of peptide with nucleic acids, which contributes to design the structure of new and efficient drugs.
KeywordsTrp-Arg ct DNA Interaction mechanisms Spectroscopic Molecular modeling
The work is supported by NSFC (21277081), the Cultivation Fund of the Key Scientific and Technical Innovation Project, Ministry of Education of China (708058), and Independent innovation foundation of Shandong University natural science projects (2012DX002) are also acknowledged.
- 13.Zou HY, Wu HL, Zhang Y, Li SF, Nie JF, Fu HY, Yu RQ (2009) Studying the interaction of pirarubicin with DNA and determining pirarubicin in human urine samples: combining excitation-emission fluorescence matrices with second-order calibration methods. J Fluoresc 19(6):955–966PubMedCrossRefGoogle Scholar
- 35.Arjmand F, Sharma GC, Sayeed F, Muddassir M, Tabassum S (2011) De novo design of chiral organotin cancer drug candidates: validation of enantiopreferential binding to molecular target DNA and 5′-GMP by UV–visible, fluorescence, 1H and 31P NMR. J Photochem Photobiol B105(3):167–174Google Scholar