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Analysis and Prediction of DNA-Recognition by Zinc Finger Proteins: Applications in Genome Modification
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Author(s): Anita Sarkar (Indian Institute of Technology (IIT), India), Sonu Kumar (Indian Institute of Technology (IIT), India), Ankita Punetha (Indian Institute of Technology (IIT), India), Abhinav Grover (Indian Institute of Technology (IIT), India)and Durai Sundar (Indian Institute of Technology (IIT), India)
Copyright: 2011
Pages: 15
Source title:
Biomedical Engineering and Information Systems: Technologies, Tools and Applications
Source Author(s)/Editor(s): Anupam Shukla (ABV – Indian Institute of Information, India)and Ritu Tiwari (ABV – Indian Institute of Information, India)
DOI: 10.4018/978-1-61692-004-3.ch016
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Abstract
Zinc fingers are the most abundant class of DNA-binding proteins encoded in the eukaryotic genomes. Custom-designed zinc finger proteins attached to various DNA-modifying domains can be used to achieve highly specific genome modification, which has tremendous applications in molecular therapeutics. Analysis of sequence and structure of the zinc finger proteins provides clues for understanding protein-DNA interactions and aid in custom-design of zinc finger proteins with tailor-made specificity. Computational methods for prediction of recognition helices for C2H2 zinc fingers that bind to specific target DNA sites could provide valuable insights for researchers interested in designing specific zinc finger proteins for biological and biomedical applications. In this chapter, we describe the zinc finger protein-DNA interaction patterns, challenges in engineering the recognition-specificity of zinc finger proteins, the computational methods of prediction of proteins that recognize specific target DNA sequence and their applications in molecular therapeutics.
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