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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

Clusters of coarse-grained water molecules.
JD Farrell, DJ Wales
– Journal of Physical Chemistry A
(2014)
118,
7338
Proton Transfer Pathways, Energy Landscape, and Kinetics in Creatine-Water Systems
O Ivchenko, CS Whittleston, JM Carr, P Imhof, S Goerke, P Bachert, DJ Wales
– Journal of Physical Chemistry B
(2014)
118,
1969
Chemistry, Geometry, and Defects in Two Dimensions
DJ Wales
– ACS Nano
(2014)
8,
1081
A Kinetic Approach to the Sequence–Aggregation Relationship in Disease-Related Protein Assembly
B Barz, DJ Wales, B Strodel
– The journal of physical chemistry. B
(2014)
118,
1003
Exploring energy landscapes: from molecular to mesoscopic systems.
D Chakrabarti, H Kusumaatmaja, V Rühle, DJ Wales
– Physical Chemistry Chemical Physics
(2014)
16,
5014
Design principles for Bernal spirals and helices with tunable pitch.
SN Fejer, D Chakrabarti, H Kusumaatmaja, DJ Wales
– Nanoscale
(2014)
6,
9448
A conformational factorisation approach for estimating the binding free energies of macromolecules
K Mochizuki, CS Whittleston, S Somani, H Kusumaatmaja, DJ Wales
– Phys Chem Chem Phys
(2014)
16,
2842
Wide Exploration of OPEP Protein Energy Landscapes using Advanced Monte Carlo Methods
T Cragnolini, KH Sutherland-Cash, D Wales, S Pasquali, P Derreumaux
– Biophysical Journal
(2014)
106,
256A
Observation time scale, free-energy landscapes, and molecular symmetry.
DJ Wales, P Salamon
– Proceedings of the National Academy of Sciences
(2013)
111,
617
Communication: A new paradigm for structure prediction in multicomponent systems
D Schebarchov, DJ Wales
– The Journal of Chemical Physics
(2013)
139,
221101
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Research Group

Research Interest Groups

Telephone number

01223 336354

Email address

dw34@cam.ac.uk