Avijit (Avi) Chakrabartty

Avijit (Avi) Chakrabartty, PhD

Protein folding and design

The highly diverse and complex three-dimensional (3D) structures of proteins are integral to their equally diverse and complex functions. The mechanism by which a particular protein folds into its 3D structure is encoded in its amino acid sequence. This code is essentially the second half of the genetic code, and breaking the code is the ultimate goal of protein folding research.

The protein folding problem is not only a problem of basic science, but also has important medical applications. The protein folding code will aid in interpreting genomic sequences by providing information which can be used to infer function for new genes.

The protein folding code can also be used to identify the biochemical consequences of mutations that cause disease. Knowing the protein folding code is critical for protein design, and the ability to design proteins will in turn have enormous consequences for biotechnology.

Our research efforts concentrate on elucidating the mechanism of protein folding and applying the mechanistic information to medical problems. Two medical aspects of protein folding in which we are currently interested include: a) amyloid fibril formation; and b) design of polypeptide mimics of helical cytokines.
 
Elife. 2017 Jun 26;6:
Wang H, Muiznieks LD, Ghosh P, Williams D, Solarski M, Fang A, Ruiz-Riquelme A, Pomès R, Watts JC, Chakrabartty A, Wille H, Sharpe S, Schmitt-Ulms G
Protein Eng Des Sel. 2017 May 05;:1-13
Ip P, Sharda PR, Cunningham A, Chakrabartty S, Pande V, Chakrabartty A
Sci Rep. 2017 Apr 13;7(1):882
Malevanets A, Chong PA, Hansen DF, Rizk P, Sun Y, Lin H, Muhandiram R, Chakrabartty A, Kay LE, Forman-Kay JD, Wodak SJ
Clin Sci (Lond). 2017 Mar 01;131(5):395-409
Galant NJ, Westermark P, Higaki JN, Chakrabartty A
Biochemistry. 2017 Jan 23;:
Sun Y, Chakrabartty A
Nucleic Acids Res. 2016 Jun 14;
Wan LC, Pillon MC, Thevakumaran N, Sun Y, Chakrabartty A, Guarné A, Kurinov I, Durocher D, Sicheri F
Sci Rep. 2016;6:27679
Galant NJ, Bugyei-Twum A, Rakhit R, Walsh P, Sharpe S, Arslan PE, Westermark P, Higaki JN, Torres R, Tapia J, Chakrabartty A
Sci Rep. 2016;6:25080
Galant NJ, Bugyei-Twum A, Rakhit R, Walsh P, Sharpe S, Arslan PE, Westermark P, Higaki JN, Torres R, Tapia J, Chakrabartty A

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Professor, Department of Medical Biophysics, University of Toronto