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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

Computer simulations of peptides from the p53 DNA binding domain
M Khalili, DJ Wales
– Journal of chemical theory and computation
(2009)
5,
1380
Refined kinetic transition networks for the GB1 hairpin peptide.
JM Carr, DJ Wales
– Phys Chem Chem Phys
(2009)
11,
3341
Energy landscapes for shells assembled from pentagonal and hexagonal pyramids
SN Fejer, TR James, J Hernández-Rojas, DJ Wales
– Phys Chem Chem Phys
(2009)
11,
2098-2104
Simulations of rigid bodies in an angle-axis framework.
D Chakrabarti, DJ Wales
– Phys Chem Chem Phys
(2009)
11,
1970
Stepwise melting of a model glass former under confinement (9 pages).
F Calvo, DJ Wales
– J. Chem. Phys.
(2009)
131,
134504
Rational design of helical architectures.
D Chakrabarti, SN Fejer, DJ Wales
– Proc. Nat. Acad. Sci. USA
(2009)
106,
20164-20287
Refined kinetic transition networks for the GB1 hairpin peptide.
JM Carr, DJ Wales
– Phys. Chem. Chem. Phys.
(2009)
11,
3341-3354
Simulations of rigid bodies in an angle-axis framework.
D Chakrabarti, D Wales
– Phys. Chem. Chem. Phys.
(2009)
11,
1970-1976
Spontaneous self-assembly of silica nanocages into inorganic framework materials
N Ning, F Calvo, ACT van Duin, DJ Wales, H Vach
– Journal of Physical Chemistry C
(2008)
113,
518
Free energy surfaces from an extended harmonic superposition approach and kinetics for alanine dipeptide
B Strodel, DJ Wales
– Chem. Phys. Lett.
(2008)
466,
105
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Research Group

Research Interest Groups

Telephone number

01223 336354

Email address

dw34@cam.ac.uk