skip to content
 

Professor Jane Clarke FRS

Portrait of jc162

Biophysical and structural studies of protein folding

The physics and chemistry of weak molecular interactions underpin the whole of biology. These determine the structure and stability of biological macromolecules and the strength and lifetime of interactions of these macromolecules with other cellular components. Understanding how a protein folds into a specific structure (which is only marginally stable) on a biologically relevant timescale, is still a significant challenge. Fundamental biophysical studies of the folding of proteins and of protein-protein interactions are key to understanding cellular function.

We have two fundamental research areas:

(1) How do proteins fold at the atomistic level and how is misfolding avoided?
(2) How do changes in sequence, as the result of evolution, or brought about by mutation affect
the biophysical properties of proteins?

 

We study families of proteins using a multidisciplinary approach, to address specific questions:

  • The folding of related proteins: By comparing the folding of a number of related proteins from large structural families we can investigate the relationship between amino acid sequence and topology and protein stability.
  • The folding of multidomain proteins: Most proteins consist of a number of independently folding domains. How do domain:domain interactions modulate the properties of the protein? Importantly, how do larger, multidomain proteins avoid misfolding?

  • Intrinsically disordered proteins (IDPs): A significant proportion of proteins have large disordered segments. These proteins are often involved in important important signalling pathways. IDPs fold upon binding to a target. We are developing the tools used to study globular protein folding to investigate the mechanisms of folding of IDPs.

Selected Publications

Borgia, M. B., Nickson, A.A., Clarke J. & Hounslow, M.J. (2013) A mechanistic model for amorphous protein aggregation of immunoglobulin-like domains. J. Am. Chem. Soc., in press DOI: 10.1021/ja308852b

Rogers, J.M. Steward, A. & Clarke, J. Folding and binding of an intrinsically disordered protein: fast, but not ‘diffusion-limited’. J. Am. Chem. Soc., 135, 1415−1422 DOI: 10.1021/ja309527h

Nickson, A. A., Wensley, B.G. & Clarke, J. Take home lessons from studies of related proteins. Curr. Opin. Struct. Biol. 23, 66-74.

Wensley, B.G., Kwa, L.G., Shammas, S.L., Rogers, J.M., Browning, S., Yang, Z. & Clarke, J. (2012) Separating the effects of internal friction and transition state energy to explain the slow, frustrated folding of spectrin domains. Proc. Natl. Acad. Sci. USA 109, 17795-17799.

Borgia, M.B., Borgia, A., Best, R.B., Steward, A., Nettels, D., Wunderlich, B., Schuler, B. & Clarke, J. (2011) Single-molecule fluorescence reveals sequence-specific misfolding in multidomain proteins. Nature 474, 662-665.

Wensley, B.G., Batey, S., Bone, F.A.C., Chan, Z.M., Tumelty, N.R., Steward, A., Kwa, L.G., Borgia, A. & Clarke, J. (2010) Experimental evidence for a frustrated energy landscape in a 3-helix bundle protein family. Nature 463, 685-689.

Publications

GADIS: Algorithm for designing sequences to achieve target secondary structure profiles of intrinsically disordered proteins.
TS Harmon, MD Crabtree, SL Shammas, AE Posey, J Clarke, RV Pappu
– Protein Engineering Design and Selection
(2016)
29,
339
The Role of Disorder in Protein Folding
J Clarke
– BIOPHYSICAL JOURNAL
(2016)
110,
196A
Plasticity of Nucleoporin Nuclear Transport Receptor Interactions - Molecular Description of a Highly Dynamic, Ultrafast Interaction Mechanism
IV Aramburu, D Mercadante, S Milles, M Ringkjobing, N Banterle, C Koehler, S Tyagi, J Clarke, SL Shammas, M Blackledge, F Graeter, EA Lemke
– BIOPHYSICAL JOURNAL
(2016)
110,
357A
Insights into Coupled Folding and Binding Mechanisms from Kinetic Studies
SL Shammas, MD Crabtree, L Dahal, BIM Wicky, J Clarke
– J Biol Chem
(2016)
291,
6689
De Novo Evolutionary Emergence of a Symmetrical Protein Is Shaped by Folding Constraints.
RG Smock, I Yadid, O Dym, J Clarke, DS Tawfik
– Cell
(2016)
164,
476
Plasticity of an Ultrafast Interaction between Nucleoporins and Nuclear Transport Receptors
S Milles, D Mercadante, IV Aramburu, MR Jensen, N Banterle, C Koehler, S Tyagi, J Clarke, SL Shammas, M Blackledge, F Gräter, EA Lemke
– Cell
(2015)
163,
734
The response of greek key proteins to changes in connectivity depends on the nature of their secondary structure
KR Kemplen, D De Sancho, J Clarke
– Journal of molecular biology
(2014)
427,
2159
Cooperative folding of intrinsically disordered domains drives assembly of a strong elongated protein.
DT Gruszka, F Whelan, OE Farrance, HKH Fung, E Paci, CM Jeffries, DI Svergun, C Baldock, CG Baumann, DJ Brockwell, JR Potts, J Clarke
– Nature Communications
(2015)
6,
7271
Transient misfolding dominates multidomain protein folding.
A Borgia, KR Kemplen, MB Borgia, A Soranno, S Shammas, B Wunderlich, D Nettels, RB Best, J Clarke, B Schuler
– Nature Communications
(2015)
6,
8861
Evolution of oligomeric state through allosteric pathways that mimic ligand binding
T Perica, Y Kondo, SP Tiwari, SH McLaughlin, KR Kemplen, X Zhang, A Steward, N Reuter, J Clarke, SA Teichmann
– Science
(2014)
346,
1254346
  •  
  • 1 of 14
  • >

Research Interest Group

Telephone number

01223 336426

Email address

jc162@cam.ac.uk

College

Trinity Hall