skip to content

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

Global optimization and folding pathways of selected alpha-helical proteins (12 pages).
JM Carr, DJ Wales
– The Journal of chemical physics
(2005)
123,
234901
Novel structural motifs in clusters of dipolar spheres: Knots, links, and coils
MA Miller, DJ Wales
– Journal of Physical Chemistry B
(2005)
109,
23109
Global minima for water clusters (H2O)n, n<21, described by a five- site empirical potential
T James, DJ Wales, J Hernandez-Rojas
– Chemical Physics Letters
(2005)
416,
302
Energy landscapes and properties of biomolecules.
DJ Wales
– Physical Biology
(2005)
2,
s86
Intermolecular forces and clusters: Contributions in honour of anthony stone
DJ Wales
– Structure and Bonding
(2005)
116,
ix
Diagnosing broken ergodicity using an energy fluctuation metric.
VK de Souza, DJ Wales
– J. Chem. Phys.
(2005)
123,
134504
Influence of vibrational energy flow on isomerization of flexible molecules: incorporating non-Rice-Ramsperger-Kassel-Marcus kinetics in the simulation of dipeptide isomerization.
JK Agbo, DM Leitner, DA Evans, DJ Wales
– The Journal of chemical physics
(2005)
123,
124304
Pathways for dissociative ethane chemisorption on Pt{110} (1x2) using density functional theory
AT Anghel, DJ Wales, SJ Jenkins, DA King
– Chemical Physics Letters
(2005)
413,
289
Global minima and energetics of Li+(H2O), and Ca2+(H2O)(n) clusters for n <= 20
BS Gonzalez, J Hernandez-Rojas, DJ Wales
– Chem. Phys. Lett.
(2005)
412,
23-28
Finite Size Effects in the Dynamics and Thermodynamics of 2D Coulomb Clusters
E Yurtsever, F Calvo, DJ Wales
– Phys. Rev. E
(2005)
72,
026110
  • <
  • 39 of 69
  • >

Research Group

Research Interest Groups

Telephone number

01223 336354

Email address

dw34@cam.ac.uk