Chitra Narayanan

Dr. Chitra Narayanan

orcid

Research Focus & Metrics

Academic Career Length

23Years (2004-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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1 August 2009 in Journal of Molecular Biology
Verified
Journal Article
Closed access
KWKuen-phon Wu
Kuen-phon Wu
DWDaniel S. Weinstock
Daniel S. Weinstock
CNChitra Narayanan
Chitra Narayanan
RLRonald M. Levy
Ronald M. Levy
JBJean Baum
Jean Baum

19 September 2013 in The Journal of Chemical Physics
Verified
Journal Article
Closed access
CNChitra Narayanan
Chitra Narayanan
CDCristiano L. Dias
Cristiano L. Dias
In this study, we investigate interactions of extended conformations of homodimeric peptides made of small (glycine or alanine) and large hydrophobic (valine or leucine) sidechains using all-atom molecular dynamics simulations to decipher driving forces for β-sheet formation. We make use of a periodic boundary condition setup in which individual peptides are infinitely long and stretched. Dimers adopt β-sheet conformations at short interpeptide distances (ξ ∼ 0.5 nm) and at intermediate distances (∼0.8 nm), valine and leucine homodimers assume cross-β-like conformations with side chains interpenetrating each other. These two states are identified as minima in the potential of mean force. While the number of interpeptide hydrogen bonds increases with decreasing interpeptide distance, the total hydrogen bond number in the system does not change significantly, suggesting that formation of β-sheet structures from extended conformations is not driven by hydrogen bonds. This is supported by an increase in electrostatic energy at short interpeptide distances. A remarkable correlation between the volume of the system and the total electrostatic energy is observed, further reinforcing the idea that excluding water in proteins comes with an enthalpic penalty. We also discuss microscopic mechanisms accounting for β-sheet formation based on computed enthalpy and entropy and we show that they are different for peptides with small and large side chains.

1 December 2015 in Structure
Verified
Journal Article
Closed access
DGDonald Gagné
Donald Gagné
RFRachel L. French
Rachel L. French
CNChitra Narayanan
Chitra Narayanan
MSMiljan Simonović
Miljan Simonović
PAPratul K. Agarwal
Pratul K. Agarwal
Nicolas DoucetNicolas Doucet
Nicolas Doucet

1 March 2018 in Structure
Verified
Journal Article
Closed access
CNChitra Narayanan
Chitra Narayanan
DBDavid N. Bernard
David N. Bernard
KBKhushboo Bafna
Khushboo Bafna
DGDonald Gagné
Donald Gagné
CCChakra S. Chennubhotla
Chakra S. Chennubhotla
PAPratul K. Agarwal
Pratul K. Agarwal

1 August 2017 in Archives of Biochemistry and Biophysics
Verified
Journal Article
Closed access
CNChitra Narayanan
Chitra Narayanan
KBKhushboo Bafna
Khushboo Bafna
LRLouise D. Roux
Louise D. Roux
PAPratul K. Agarwal
Pratul K. Agarwal
Nicolas DoucetNicolas Doucet
Nicolas Doucet

5 June 2012 in Journal of Chemical Theory and Computation
Verified
Journal Article
Closed access
CNChitra Narayanan
Chitra Narayanan
DWDaniel S. Weinstock
Daniel S. Weinstock
KWKuen-phon Wu
Kuen-phon Wu
JBJean Baum
Jean Baum
RLRonald M. Levy
Ronald M. Levy