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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

Energy Landscape and Kinetic Analysis of Molecular Dynamics Simulations for Intrinsically Disordered Proteins.
M Schäffler, DJ Wales, B Strodel
– J Phys Chem B
(2025)
acs.jpcb.5c05390
Vibrational energy landscapes and energy flow in GPCRs: comparison between class A and class B GPCRs using all atom and coarse-grained models.
H Poudel, PH Shaon, DJ Wales, DM Leitner
– Physical Chemistry Chemical Physics
(2025)
Benchmark of Available Explicit Solvent Models in CHARMM36m to Characterize Glycosaminoglycans
P Wesolowski, D Wales, K Bojarski
– The journal of physical chemistry. B
(2025)
129,
9953
The energy landscape of folding in n-C14H30 described by a machine-learned potential
TC Allison, JM Bowman, PL Houston, Y Pillai, C Qu, DJ Wales
– The Journal of chemical physics
(2025)
163,
104307
Energy Landscapes of Model Knotted Polymers
T Hao, Y Ge, MA Miller, A L N Francesco, DJ Wales
– Journal of Chemical Theory and Computation
(2025)
21,
8168
Parp7 generates an ADP-ribosyl degron that controls negative feedback of androgen signaling
K Wierbiłowicz, C-S Yang, A Almaghasilah, PA Wesołowski, P Pracht, NM Dworak, J Masur, S Wijngaarden, DV Filippov, DJ Wales, JB Kelley, A Ratan, BM Paschal
– EMBO Journal
(2025)
44,
1
Synthesis of covalently linked knotted cage frameworks
Y Yang, TK Ronson, PCP Teeuwen, S Zucchelli, AW Heard, P Posocco, DJ Wales, JR Nitschke
– Nat Synth
(2025)
4,
1270
Light-Driven Lithium Extraction from Mixtures of Alkali Cations Using an Azobipyridine Ligand.
Y Du, A Ghosh, PCP Teeuwen, DJ Wales, JR Nitschke
– Journal of the American Chemical Society
(2025)
147,
20205
Proton-driven lithium separation using alkali-templated coordination cages
X Sun, K Wu, PCP Teeuwen, P Pracht, DJ Wales, JR Nitschke
– Chem
(2025)
11,
102556
Effect of Cooling Rate and Molecular Weight on the Nonisothermal Crystallization of Polyethylene
T Hao, X Li, DJ Wales, Y Ming, Y Nie, Z Zhou, D Yan
– Journal of Applied Polymer Science
(2025)
142,
e56936
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Research Group

Research Interest Groups

Telephone number

01223 336354

Email address

dw34@cam.ac.uk