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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

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
Exploring the energy landscape
DJ Wales
– International Journal of Modern Physics B
(2012)
19,
2877
Conformational dynamics of capping protein and interaction partners: Simulation studies
S Lukman, RC Robinson, D Wales, CS Verma
– Proteins
(2012)
80,
1066
Energy landscapes of ion clusters in isotropic quadrupolar and octupolar traps.
F Calvo, E Yurtsever, DJ Wales
– The Journal of Chemical Physics
(2012)
136,
024303
Enzyme catalysis from linear-scaling DFT: Application to chorismate mutase
G Lever, DJ Cole, C-K Skylaris, DJ Wales, KE Ranaghan, AJ Mulholland, MC Payne
– ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY
(2012)
243,
Characterizing molecular motion in H2O and H3O+ with dynamical instability statistics
JR Green, TS Hofer, RS Berry, DJ Wales
– The Journal of Chemical Physics
(2011)
135,
184307
A survey of the potential energy surface for the (benzene)(13) cluster
D Chakrabarti, TS Totton, M Kraft, DJ Wales
– Physical chemistry chemical physics : PCCP
(2011)
13,
21362
H2 molecules encapsulated in extended Ben cluster cages: Toward light-metal nanofoams for hydrogen storage
FY Naumkin, DJ Wales
– Journal of Physical Chemistry A
(2011)
115,
12105
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Research Group

Research Interest Groups

Telephone number

01223 336354

Email address

dw34@cam.ac.uk