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Yusuf Hamied Department of Chemistry

 

Professor of Chemical Physics

The self-assembly of complex mesoscopic structures, the folding of proteins, and the complicated phenomenology of glasses are all manifestations of the underlying potential energy surface (PES). In each of these fields related ideas have emerged to explain and predict chemical and physical properties in terms of the PES. In studies of clusters and glasses the PES itself is often investigated directly, whereas for proteins and other biomolecules it is also common to define free energy surfaces, as the figure below illustrates for lysozyme.

Applications of energy landscape theory in my group range from studies of tunnelling splitting patterns in small molecules to computer simulation of protein folding and misfolding, including aggregation of misfolded proteins. Other active research topics include global optimisation and investigation of how the thermodynamic and dynamic properties of glasses are related to the underlying PES.

Two recent advances are now providing new insight into larger systems. Discrete path sampling enables dynamical properties to be obtained efficiently, and is being used to calculate folding rates for proteins. Unexpected connections between dynamics and thermodynamics have also been revealed by the application of catastrophe theory to energy landscapes, and new results are now being obtained to characterize phase transitions.

Publications

Hydrogen trapped in Be n cluster cages: The atomic encapsulation option
FY Naumkin, DJ Wales
– Chemical Physics Letters
(2012)
545,
44
A local rigid body framework for global optimization of biomolecules
H Kusumaatmaja, CS Whittleston, DJ Wales
– Journal of chemical theory and computation
(2012)
8,
5159
Chaotic dynamics near steep transition states
JR Green, TS Hofer, DJ Wales, RS Berry
– Molecular Physics
(2012)
110,
1839
Decoding the energy landscape: extracting structure, dynamics and thermodynamics.
DJ Wales
– Philosophical Transactions of the Royal Society A Mathematical Physical and Engineering Sciences
(2012)
370,
2877
Bond-selective energy redistribution in the chemisorption of CH3D and CD3H on Pt{110}-(1×2): A first-principles molecular dynamics study
M Sacchi, DJ Wales, SJ Jenkins
– Computational and Theoretical Chemistry
(2012)
990,
144
Chemistry. Pinning down the water hexamer.
RJ Saykally, DJ Wales
– Science
(2012)
336,
814
Evolution of the potential energy landscape with static pulling force for two model proteins
DJ Wales, T Head-Gordon
– The Journal of Physical Chemistry B
(2012)
116,
8394
The Effect of Nonnative Interactions on the Energy Landscapes of Frustrated Model Proteins
MT Oakley, DJ Wales, RL Johnston
– Journal of Atomic, Molecular, and Optical Physics
(2012)
2012,
1
The energy landscape as a computational tool
JM CARR, DJ WALES
– Latest Advances in Atomic Cluster Collisions: Structure and Dynamics from the Nuclear to the Biological Scale
(2012)
321-330
Exploring the energy landscape
DJ WALES
– International Journal of Modern Physics B
(2012)
19,
2877
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Research Group

Research Interest Groups

Telephone number

01223 336354

Email address

dw34@cam.ac.uk