the goodman group this list is a product of research in the Goodman Group;
it is not the official department of chemistry list of
academics or academic publications
university of cambridge  


List papers in: all subjects | Biological | Materials | Physical | Synthesis | Theory, Modelling and Informatics
Jane Clarke FRS Publications


The Response Of Greek Key Proteins To Changes In Connectivity Depends On The Nature Of Their Secondary Structure
Kemplen KR, De Sancho D, Clarke J
Journal of Molecular Biology 2015, 427, 2159-2165 DOI: 10.1016/j.jmb.2015.03.020


The Response Of Greek Key Proteins To Changes In Connectivity Depends On The Nature Of Their Secondary Structure.
Kemplen KR, De Sancho D, Clarke J
Journal of Molecular Biology 2015, 427, 2159-2165 DOI: 10.1016/j.jmb.2015.03.020


Cooperative Folding Of Intrinsically Disordered Domains Drives Assembly Of A Strong Elongated Protein.
Gruszka DT, Whelan F, Farrance OE, Fung HK, Paci E, Jeffries CM, Svergun DI, Baldock C, Baumann CG, Brockwell DJ, Potts JR, Clarke J
Nature Communications 2015, 6, 7271- DOI: 10.1038/ncomms8271


Evolution Of Oligomeric State Through Allosteric Pathways That Mimic Ligand Binding.
Perica T, Kondo Y, Tiwari SP, McLaughlin SH, Kemplen KR, Zhang X, Steward A, Reuter N, Clarke J, Teichmann SA
Science 2014, 346, 1254346- DOI: 10.1126/science.1254346


Interplay Between Partner And Ligand Facilitates The Folding And Binding Of An Intrinsically Disordered Protein.
Rogers JM, Oleinikovas V, Shammas SL, Wong CT, De Sancho D, Baker CM, Clarke J
Proceedings of the National Academy of Sciences of USA 2014, 111, 15420-15425 DOI: 10.1073/pnas.1409122111


Cure efficiency of dodecyl succinic anhydride as a cross-linking agent for elastomer blends based on epoxidized natural rubber
Leno Mascia, Jane Clarke, Kiat Seong Ng, Kok Sien Chua and Pietro Russo
Journal_of_Applied_Polymer_Science DOI: 10.1002/app.41448


Allostery Within A Transcription Coactivator Is Predominantly Mediated Through Dissociation Rate Constants.
Shammas SL, Travis AJ, Clarke J
Proceedings of the National Academy of Sciences of USA 2014, 111, 12055-12060 DOI: 10.1073/pnas.1405815111


Coupled Folding And Binding Of The Disordered Protein Puma Does Not Require Particular Residual Structure.
Rogers JM, Wong CT, Clarke J
Journal of the American Chemical Society 2014, 136, 5197-5200 DOI: 10.1021/ja4125065


Mechanism Of Assembly Of The Non-Covalent Spectrin Tetramerization Domain From Intrinsically Disordered Partners
Hill SA, Hill SA, Kwa LG, Shammas SL, Lee JC, Clarke J
Journal of Molecular Biology 2014, 426, 21-35 DOI: 10.1016/j.jmb.2013.08.027


The Folding Of A Family Of Three-Helix Bundle Proteins: Spectrin R15 Has A Robust Folding Nucleus, Unlike Its Homologous Neighbours.
Kwa LG, Wensley BG, Alexander CG, Browning SJ, Lichman BR, Clarke J
Journal of Molecular Biology 2014, 426, 1600-1610 DOI: 10.1016/j.jmb.2013.12.018


Remarkably Fast Coupled Folding And Binding Of The Intrinsically Disordered Transactivation Domain Of Cmyb To Cbp Kix.
Shammas SL, Travis AJ, Clarke J
The Journal of Physical Chemistry Part B: Condensed Matter, Materials, Surfaces, Interfaces and Biophysical 2013, 117, 13346-13356 DOI: 10.1021/jp404267e


A Mechanistic Model For Amorphous Protein Aggregation Of Immunoglobulin-Like Domains.
Borgia MB, Nickson AA, Clarke J, Hounslow MJ
Journal of the American Chemical Society 2013, 135, 6456-6464 DOI: 10.1021/ja308852b


Folding And Binding Of An Intrinsically Disordered Protein: Fast, But Not 'Diffusion-Limited'.
Rogers JM, Steward A, Clarke J
Journal of the American Chemical Society 2013, 135, 1415-1422 DOI: 10.1021/ja309527h


Biophysics: Rough Passage Across A Barrier
Schuler B, Clarke J
Nature 2013, 502, 632-633 DOI: 10.1038/nature12697


Take Home Lessons From Studies Of Related Proteins.
Nickson AA, Wensley BG, Clarke J
2013, 23, 66-74 DOI: 10.1016/j.sbi.2012.11.009


Understanding Pathogenic Single-Nucleotide Polymorphisms In Multidomain Proteins--Studies Of Isolated Domains Are Not Enough.
Randles LG, Dawes GJ, Wensley BG, Steward A, Nickson AA, Clarke J
The Federation of European Biochemical Societies (FEBS) Journal 2013, 280, 1018-1027 DOI: 10.1111/febs.12094


Slow, Reversible, Coupled Folding And Binding Of The Spectrin Tetramerization Domain.
Shammas SL, Rogers JM, Hill SA, Clarke J
Biophysical Journal 2012, 103, 2203-2214 DOI: 10.1016/j.bpj.2012.10.012


Separating The Effects Of Internal Friction And Transition State Energy To Explain The Slow, Frustrated Folding Of Spectrin Domains.
Wensley BG, Kwa LG, Shammas SL, Rogers JM, Browning S, Yang Z, Clarke J
Proceedings of the National Academy of Sciences of USA 2012, 109, 17795-17799 DOI: 10.1073/pnas.1201793109


Protein Folding: Adding A Nucleus To Guide Helix Docking Reduces Landscape Roughness
Wensley BG, Wensley BG, Kwa LG, Kwa LG, Shammas SL, Rogers JM, Clarke J
Journal of Molecular Biology 2012, 423, 273-283 DOI: 10.1016/j.jmb.2012.08.003


Two Immunoglobulin Tandem Proteins With A Linking β-Strand Reveal Unexpected Differences In Cooperativity And Folding Pathways
Steward A, Chen Q, Chapman RI, Borgia MB, Rogers JM, Wojtala A, Wilmanns M, Clarke J
Journal of Molecular Biology 2012, 416, 137-147 DOI: 10.1016/j.jmb.2011.12.012


Localizing Internal Friction Along The Reaction Coordinate Of Protein Folding By Combining Ensemble And Single-Molecule Fluorescence Spectroscopy
Borgia A, Wensley BG, Wensley BG, Soranno A, Nettels D, Borgia MB, Borgia MB, Hoffmann A, Hoffmann A, Pfeil SH, Pfeil SH, Lipman EA, Clarke J, Schuler B
Nature Communications 2012, 3, - DOI: 10.1038/ncomms2204


Learning From Nature To Design New Biomolecules
Clarke J, Schief W
Current Opinion in Structural Biology 2012, 22, 395-396 DOI: 10.1016/j.sbi.2012.07.001


Staphylococcal Biofilm-Forming Protein Has A Contiguous Rod-Like Structure
Gruszka DT, Wojdyla JA, Bingham RJ, Turkenburg JP, Manfield IW, Steward A, Leech AP, Geoghegan JA, Foster TJ, Clarke J, Potts JR, Potts JR
Proceedings of the National Academy of Sciences of USA 2012, 109, E1011-E1018 DOI: 10.1073/pnas.1119456109


Single-Molecule Fluorescence Reveals Sequence-Specific Misfolding In Multidomain Proteins
Borgia MB, Borgia MB, Borgia A, Best RB, Steward A, Nettels D, Wunderlich B, Schuler B, Clarke J
Nature 2011, 474, 662-665 DOI: 10.1038/nature10099


Quantifying Heterogeneity And Conformational Dynamics From Single Molecule Fret Of Diffusing Molecules: Recurrence Analysis Of Single Particles (Rasp)
Hoffmann A, Hoffmann A, Nettels D, Clark J, Clark J, Borgia A, Borgia A, Radford SE, Clarke J, Schuler B
Physical Chemistry Chemical Physics 2011, 13, 1857-1871 DOI: 10.1039/C0CP01911A


What Lessons Can Be Learned From Studying The Folding Of Homologous Proteins?
Nickson AA, Clarke J
Methods 2010, 52, 38-50 DOI: 10.1016/j.ymeth.2010.06.003


Protein Engineering And Design: From First Principles To New Technologies
Clarke J, Regan L
Current Opinion in Structural Biology 2010, 20, 480-481 DOI: 10.1016/j.sbi.2010.07.001


Membrane Protein Folding Makes The Transition
Booth PJ, Clarke J
Proceedings of the National Academy of Sciences of USA 2010, 107, 3947-3948 DOI: 10.1073/pnas.0914478107


Experimental Evidence For A Frustrated Energy Landscape In A Three-Helix-Bundle Protein Family.
Wensley BG, Batey S, Bone FA, Chan ZM, Tumelty NR, Steward A, Kwa LG, Borgia A, Clarke J
Nature 2010, 463, 685-688 DOI: 10.1038/nature08743


Non-Native Interactions Are Critical For Mechanical Strength In Pkd Domains.
Forman JR, Yew ZT, Qamar S, Sandford RN, Paci E, Clarke J
Structure 2009, 17, 1582-1590 DOI: 10.1016/j.str.2009.09.013


Naturally Occurring Mutations Alter The Stability Of Polycystin-1 Polycystic Kidney Disease (Pkd) Domains.
Ma L, Xu M, Forman JR, Clarke J, Oberhauser AF
Journal of Biological Chemistry 2009, 284, 32942-32949 DOI: 10.1074/jbc.M109.021832


Different Members Of A Simple Three-Helix Bundle Protein Family Have Very Different Folding Rate Constants And Fold By Different Mechanisms.
Wensley BG, Gärtner M, Choo WX, Batey S, Clarke J
Journal of Molecular Biology 2009, 390, 1074-1085 DOI: 10.1016/j.jmb.2009.05.010


Topology Is The Principal Determinant In The Folding Of A Complex All-Alpha Greek Key Death Domain From Human Fadd.
Steward A, McDowell GS, Clarke J
Journal of Molecular Biology 2009, 389, 425-437 DOI: 10.1016/j.jmb.2009.04.004


Studying The Folding Of Multidomain Proteins.
Batey S, Nickson AA, Clarke J
HFSP Journal 2008, 2, 365-377 DOI: 10.2976/1.2991513


Manipulating The Stability Of Fibronectin Type Iii Domains By Protein Engineering
Ng SP, Billings KS, Randles LG, Clarke J
Nanotechnology 2008, 19, - DOI: 10.1088/0957-4484/19/38/384023


Folding Of A Lysm Domain: Entropy-Enthalpy Compensation In The Transition State Of An Ideal Two-State Folder.
Nickson AA, Stoll KE, Clarke J
Journal of Molecular Biology 2008, 380, 557-569 DOI: 10.1016/j.jmb.2008.05.020


The Folding Pathway Of A Single Domain In A Multidomain Protein Is Not Affected By Its Neighbouring Domain.
Batey S, Clarke J
Journal of Molecular Biology 2008, 378, 297-301 DOI: 10.1016/j.jmb.2008.02.032


Characterisation Of Transition State Structures For Protein Folding Using 'High', 'Medium' And 'Low' {Phi}-Values.
Geierhaas CD, Salvatella X, Clarke J, Vendruscolo M
Protein Engineering Design and Selection 2008, 21, 215-222 DOI: 10.1093/protein/gzm092


Distinguishing Specific And Nonspecific Interdomain Interactions In Multidomain Proteins.
Randles LG, Batey S, Steward A, Clarke J
Biophysical Journal 2008, 94, 622-628 DOI: 10.1529/biophysj.107.119123


Crosstalk Between The Protein Surface And Hydrophobic Core In A Core-Swapped Fibronectin Type Iii Domain.
Billings KS, Best RB, Rutherford TJ, Clarke J
Journal of Molecular Biology 2008, 375, 560-571 DOI: 10.1016/j.jmb.2007.10.056


Plasticity Within The Obligatory Folding Nucleus Of An Immunoglobulin-Like Domain.
Lappalainen I, Hurley MG, Clarke J
Journal of Molecular Biology 2008, 375, 547-559 DOI: 10.1016/j.jmb.2007.09.088


Single-Molecule Studies Of Protein Folding.
Borgia A, Williams PM, Clarke J
Annual Review of Biochemistry 2008, 77, 101-125 DOI: 10.1146/annurev.biochem.77.060706.093102


An Effective Strategy For The Design Of Proteins With Enhanced Mechanical Stability.
Borgia A, Steward A, Clarke J
Angewandte Chemie International Edition 2008, 47, 6900-6903 DOI: 10.1002/anie.200801761


Experiments Suggest That Simulations May Overestimate Electrostatic Contributions To The Mechanical Stability Of A Fibronectin Type Iii Domain.
Ng SP, Clarke J
Journal of Molecular Biology 2007, 371, 851-854 DOI: 10.1016/j.jmb.2007.06.015


Designing An Extracellular Matrix Protein With Enhanced Mechanical Stability.
Ng SP, Billings KS, Ohashi T, Allen MD, Best RB, Randles LG, Erickson HP, Clarke J
Proceedings of the National Academy of Sciences of USA 2007, 104, 9633-9637 DOI: 10.1073/pnas.0609901104


The Folding And Evolution Of Multidomain Proteins.
Han JH, Batey S, Nickson AA, Teichmann SA, Clarke J
Nature Reviews: Molecular Cell Biology 2007, 8, 319-330 DOI: 10.1038/nrm2144


Mechanical Unfolding Of Proteins: Insights Into Biology, Structure And Folding.
Forman JR, Clarke J
Current Opinion in Structural Biology 2007, 17, 58-66 DOI: 10.1016/j.sbi.2007.01.006


Spectrin Domains Lose Cooperativity In Forced Unfolding.
Randles LG, Rounsevell RW, Clarke J
Biophysical Journal 2007, 92, 571-577 DOI: 10.1529/biophysj.106.093690


Single Molecule Studies Of Protein Folding Using Atomic Force Microscopy.
Ng SP, Randles LG, Clarke J
Methods in Molecular Biology 2007, 350, 139-167


Bppred: A Web-Based Computational Tool For Predicting Biophysical Parameters Of Proteins.
Geierhaas CD, Nickson AA, Lindorff-Larsen K, Clarke J, Vendruscolo M
Protein Science 2007, 16, 125-134 DOI: 10.1110/ps.062383807


Apparent Cooperativity In The Folding Of Multidomain Proteins Depends On The Relative Rates Of Folding Of The Constituent Domains.
Batey S, Clarke J
Proceedings of the National Academy of Sciences of USA 2006, 103, 18113-18118 DOI: 10.1073/pnas.0604580103


Using Model Proteins To Quantify The Effects Of Pathogenic Mutations In Ig-Like Proteins.
Randles LG, Lappalainen I, Fowler SB, Moore B, Hamill SJ, Clarke J
Journal of Biological Chemistry 2006, 281, 24216-24226 DOI: 10.1074/jbc.M603593200


Structural Comparison Of The Two Alternative Transition States For Folding Of Ti I27.
Geierhaas CD, Best RB, Paci E, Vendruscolo M, Clarke J
Biophysical Journal 2006, 91, 263-275 DOI: 10.1529/biophysj.105.077057


The Folding Pathway Of Spectrin R17 From Experiment And Simulation: Using Experimentally Validated Md Simulations To Characterize States Hinted At By Experiment.
Scott KA, Randles LG, Moran SJ, Daggett V, Clarke J
Journal of Molecular Biology 2006, 359, 159-173 DOI: 10.1016/j.jmb.2006.03.011


Complex Folding Kinetics Of A Multidomain Protein.
Batey S, Scott KA, Clarke J
Biophysical Journal 2006, 90, 2120-2130 DOI: 10.1529/biophysj.105.072710


The Importance Of Sequence Diversity In The Aggregation And Evolution Of Proteins.
Wright CF, Teichmann SA, Clarke J, Dobson CM
Nature 2005, 438, 878-881 DOI: 10.1038/nature04195


Mechanical Unfolding Of Tnfn3: The Unfolding Pathway Of A Fniii Domain Probed By Protein Engineering, Afm And Md Simulation.
Ng SP, Rounsevell RW, Steward A, Geierhaas CD, Williams PM, Paci E, Clarke J
Journal of Molecular Biology 2005, 350, 776-789 DOI: 10.1016/j.jmb.2005.04.070


Cooperative Folding In A Multi-Domain Protein.
Batey S, Randles LG, Steward A, Clarke J
Journal of Molecular Biology 2005, 349, 1045-1059 DOI: 10.1016/j.jmb.2005.04.028


The Remarkable Mechanical Strength Of Polycystin-1 Supports A Direct Role In Mechanotransduction.
Forman JR, Qamar S, Paci E, Sandford RN, Clarke J
Journal of Molecular Biology 2005, 349, 861-871 DOI: 10.1016/j.jmb.2005.04.008


Spectrin R16: Broad Energy Barrier Or Sequential Transition States?
Scott KA, Clarke J
Protein Science 2005, 14, 1617-1629 DOI: 10.1110/ps.051377105


What Contributions To Protein Side-Chain Dynamics Are Probed By Nmr Experiments? A Molecular Dynamics Simulation Analysis.
Best RB, Clarke J, Karplus M
Journal of Molecular Biology 2005, 349, 185-203 DOI: 10.1016/j.jmb.2005.03.001


Biophysical Investigations Of Engineered Polyproteins: Implications For Force Data.
Rounsevell RW, Steward A, Clarke J
Biophysical Journal 2005, 88, 2022-2029 DOI: 10.1529/biophysj.104.053744


Energy Landscapes And Solved Protein-Folding Problems - Discussion
Karplus M, Wolynes PG, Dobson CM, Zewail AH, Clarke J, Schon JC
Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences 2005, 363, 464-467


The Use Of Model Proteins To Study The Effect Of Pathogenic Mutations
Randles LG, Lappalainen I, Fowler SB, Moore B, Clarke J
Biophysical Journal 2005, 88, 215A-215A


The Remarkable Mechanical Strength Of Polycystin-1 Suggests A Novel Mechanism For Mechanotransduction
Forman JR, Qamar S, Sandford RN, Clarke J
Biophysical Journal 2005, 88, 585A-585A


Single Molecule Studies Of Protein Folding By Atomic Force Microscopy(Afm)
Ng SP, Rounsevell R, Randles LG, Steward A, Clarke J
Biophysical Journal 2005, 88, 184A-184A


Protein Unfolding And Refolding Under Force Using The Biomembrane Force Probe
Brampton C, Zhang WK, Clarke J, Leung A, Evans E, Williams PM
Biophysical Journal 2005, 88, 213A-213A


Comparison Of The Different Transition States For Folding In Ti 127
Geierhaas CD, Paci E, Vendruscolo M, Clarke J
Biophysical Journal 2005, 88, 216A-216A


Energy Landscapes And Solved Protein-Folding Problems
Wolynes PG, Karplus M, Dobson CM, Zewail AH, Clarke J, Schön JC
Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences 2005, 363, 453-467


The Folding Of Spectrin Domains Ii: Phi-Value Analysis Of R16.
Scott KA, Randles LG, Clarke J
Journal of Molecular Biology 2004, 344, 207-221 DOI: 10.1016/j.jmb.2004.09.023


The Folding Of Spectrin Domains I: Wild-Type Domains Have The Same Stability But Very Different Kinetic Properties.
Scott KA, Batey S, Hooton KA, Clarke J
Journal of Molecular Biology 2004, 344, 195-205 DOI: 10.1016/j.jmb.2004.09.037


Comparison Of The Transition States For Folding Of Two Ig-Like Proteins From Different Superfamilies.
Geierhaas CD, Paci E, Vendruscolo M, Clarke J
Journal of Molecular Biology 2004, 343, 1111-1123 DOI: 10.1016/j.jmb.2004.08.100


Atomic Force Microscopy: Mechanical Unfolding Of Proteins.
Rounsevell R, Forman JR, Clarke J
Methods 2004, 34, 100-111 DOI: 10.1016/j.ymeth.2004.03.007


The Origin Of Protein Sidechain Order Parameter Distributions.
Best RB, Clarke J, Karplus M
Journal of the American Chemical Society 2004, 126, 7734-7735 DOI: 10.1021/ja049078w


The Importance Of Loop Length In The Folding Of An Immunoglobulin Domain.
Wright CF, Christodoulou J, Dobson CM, Clarke J
Protein Engineering Design and Selection 2004, 17, 443-453 DOI: 10.1093/protein/gzh052


Thermodynamic Characterisation Of Two Transition States Along Parallel Protein Folding Pathways.
Wright CF, Steward A, Clarke J
Journal of Molecular Biology 2004, 338, 445-451 DOI: 10.1016/j.jmb.2004.02.062


Using Dynamic Force Spectroscopy, Protein Engineering, Structural Studies And Molecular Dynamics Simulations To Investigate The Effect Of Force On A Protein Unfolding Landscape.
Clarke J
ACS National Meeting Book of Abstracts 2004, 227, U476-U476


Single Molecule Studies Of Protein Folding By Atomic Force Microscopy(Afm).
Ng S, Rounsevell R, Steward A, Randles L, Clarke J
ACS National Meeting Book of Abstracts 2004, 227, U545-U545


Hydrophobic Core Fluidity Of Homologous Protein Domains: Relation Of Side-Chain Dynamics To Core Composition And Packing.
Best RB, Rutherford TJ, Freund SM, Clarke J
Biochemistry 2004, 43, 1145-1155 DOI: 10.1021/bi035658e


Fniii Domains: Predicting Mechanical Stability
Rounsevell RWS, Clarke J
Structure 2004, 12, 4-5 DOI: 10.1016/j.str.2003.12.006


Parallel Protein-Unfolding Pathways Revealed And Mapped.
Wright CF, Lindorff-Larsen K, Randles LG, Clarke J
Nature Structural Biology 2003, 10, 658-662 DOI: 10.1038/nsb947


Mechanical Unfolding Of A Titin Ig Domain: Structure Of Transition State Revealed By Combining Atomic Force Microscopy, Protein Engineering And Molecular Dynamics Simulations.
Best RB, Fowler SB, Herrera JL, Steward A, Paci E, Clarke J
Journal of Molecular Biology 2003, 330, 867-877


Hidden Complexity In The Mechanical Properties Of Titin
Williams PM, Fowler SB, Best RB, Toca-Herrera JL, Scott KA, Steward A, Clarke J
Nature 2003, 422, 446-449 DOI: 10.1038/nature01517


Force Mode Atomic Force Microscopy As A Tool For Protein Folding Studies
Best RB, Brockwell DJ, Toca-Herrera JL, Blake AW, Smith DA, Radford SE, Clarke J
Analytica Chimica Acta 2003, 479, 87-105 DOI: 10.1016/S0003-2670(02)01572-6


Combining Protein Engineering And Dynamic Force Microscopy To Examine Protein Folding Landscapes
Clarke J, Best RB, Fowler SF, Steward A, Toca-Herrera JL, Williams PM, Martin KS, Paci E
Biophysical Journal 2003, 84, 308A-308A


The Hidden Strength Of Titin
Williams PM, Clarke J
Biophysical Journal 2003, 84, 337A-337A


Folding And Binding - New Technologies And New Perspectives - Editorial Overview
Clarke J, Schreiber G
Current Opinion in Structural Biology 2003, 13, 71-74 DOI: 10.1016/S0959-440X(03)00008-3


Self-Consistent Determination Of The Transition State For Protein Folding: Application To A Fibronectin Type Iii Domain.
Paci E, Clarke J, Steward A, Vendruscolo M, Karplus M
Proceedings of the National Academy of Sciences of USA 2003, 100, 394-399 DOI: 10.1073/pnas.232704999


Mechanical Unfolding Of A Titin Ig Domain: Structure Of Unfolding Intermediate Revealed By Combining Afm, Molecular Dynamics Simulations, Nmr And Protein Engineering.
Fowler SB, Best RB, Toca Herrera JL, Rutherford TJ, Steward A, Paci E, Karplus M, Clarke J
Journal of Molecular Biology 2002, 322, 841-849


A Simple Method For Probing The Mechanical Unfolding Pathway Of Proteins In Detail.
Best RB, Fowler SB, Toca-Herrera JL, Clarke J
Proceedings of the National Academy of Sciences of USA 2002, 99, 12143-12148 DOI: 10.1073/pnas.192351899


Versatile Cloning System For Construction Of Multimeric Proteins For Use In Atomic Force Microscopy.
Steward A, Toca-Herrera JL, Clarke J
Protein Science 2002, 11, 2179-2183 DOI: 10.1110/ps.0212702


Sequence Conservation In Ig-Like Domains: The Role Of Highly Conserved Proline Residues In The Fibronectin Type Iii Superfamily.
Steward A, Adhya S, Clarke J
Journal of Molecular Biology 2002, 318, 935-940 DOI: 10.1016/S0022-2836(02)00184-5


What Can Atomic Force Microscopy Tell Us About Protein Folding?
Best RB, Clarke J
Chemical Communications 2002, , 183-192


Titin; A Multidomain Protein That Behaves As The Sum Of Its Parts.
Scott KA, Steward A, Fowler SB, Clarke J
Journal of Molecular Biology 2002, 315, 819-829 DOI: 10.1006/jmbi.2001.5260


What Can Atomic Force Microscopy Tell Us About Protein Folding?
Best RB, Clarke J
Chemical Communications 2002, , 183-192


Can Non-Mechanical Proteins Withstand Force? Stretching Barnase By Atomic Force Microscopy And Molecular Dynamics Simulation.
Best RB, Li B, Steward A, Daggett V, Clarke J
Biophysical Journal 2001, 81, 2344-2356 DOI: 10.1016/S0006-3495(01)75881-X


Mapping The Folding Pathway Of An Immunoglobulin Domain: Structural Detail From Phi Value Analysis And Movement Of The Transition State.
Fowler SB, Clarke J
Structure 2001, 9, 355-366


Extending Afm To Globular Proteins: A General Method For Constructing Multidomain Repeats Applied To Proteins Without Any Structural Function.
Best RB, Steward A, Fowler S, Clarke J
ACS National Meeting Book of Abstracts 2001, 221, U345-U345


How Far Do Protein Structures Dictate The Pathway Of Folding? The "Fold Approach".
Clarke J, Cota E, Fowler SB, Hamill SJ, Steward A, Chothia C
ACS National Meeting Book of Abstracts 2001, 221, U404-U404


Cantilever Physics In The Mechanical Unfolding Of Proteins.
Cleveland J, Proksch R, Steward A, Clarke J
ACS National Meeting Book of Abstracts 2001, 221, U330-U331


The Folding Nucleus Of A Fibronectin Type Iii Domain Is Composed Of Core Residues Of The Immunoglobulin-Like Fold.
Cota E, Steward A, Fowler SB, Clarke J
Journal of Molecular Biology 2001, 305, 1185-1194 DOI: 10.1006/jmbi.2000.4378


Folding And Binding - Emerging Themes In Protein Folding And Assembly - Editorial Overview
Clarke J, Dobson CM
Current Opinion in Structural Biology 2001, 11, 67-69


Folding And Binding Emerging Themes In Protein Folding And Assembly
Clarke J, Dobson CM
Current Opinion in Structural Biology 2001, 11, 67-69 DOI: 10.1016/S0959-440X(00)00179-2


The Effects Of Disulfide Bonds On The Denatured State Of Barnase.
Clarke J, Hounslow AM, Bond CJ, Fersht AR, Daggett V
Protein Science 2000, 9, 2394-2404 DOI: 10.1110/ps.9.12.2394


Two Proteins With The Same Structure Respond Very Differently To Mutation: The Role Of Plasticity In Protein Stability.
Cota E, Hamill SJ, Fowler SB, Clarke J
Journal of Molecular Biology 2000, 302, 713-725 DOI: 10.1006/jmbi.2000.4053


Atomic Force Microscopy Reveals The Mechanical Design Of A Modular Protein
Li HB, Oberhauser AF, Fowler SB, Clarke J, Fernandez JM
Proceedings of the National Academy of Sciences of USA 2000, 97, 6527-6531


The Folding Of An Immunoglobulin-Like Greek Key Protein Is Defined By A Common-Core Nucleus And Regions Constrained By Topology.
Hamill SJ, Steward A, Clarke J
Journal of Molecular Biology 2000, 297, 165-178 DOI: 10.1006/jmbi.2000.3517


Towards A Complete Description Of The Structural And Dynamic Properties Of The Denatured State Of Barnase And The Role Of Residual Structure In Folding.
Wong KB, Clarke J, Bond CJ, Neira JL, Freund SM, Fersht AR, Daggett V
Journal of Molecular Biology 2000, 296, 1257-1282 DOI: 10.1006/jmbi.2000.3523


Conservation Of Folding And Stability Within A Protein Family: The Tyrosine Corner As An Evolutionary Cul-De-Sac.
Hamill SJ, Cota E, Chothia C, Clarke J
Journal of Molecular Biology 2000, 295, 641-649 DOI: 10.1006/jmbi.1999.3360


Mechanical Unfolding Of Titin Is Under Kinetic Control
Li H, Oberhauser A, Fowler S, Clarke J, Marszalek PE, Fernandez JM
Biophysical Journal 2000, 78, 402A-402A


Folding Of Beta-Sandwich Proteins: Three-State Transition Of A Fibronectin Type Iii Module.
Cota E, Clarke J
Protein Science 2000, 9, 112-120 DOI: 10.1110/ps.9.1.112


Folding Studies Of Immunoglobulin-Like Beta-Sandwich Proteins Suggest That They Share A Common Folding Pathway.
Clarke J, Cota E, Fowler SB, Hamill SJ
Structure 1999, 7, 1145-1153


Mechanical And Chemical Unfolding Of A Single Protein: A Comparison
Carrion-Vazquez M, Oberhauser AF, Fowler SB, Marszalek PE, Broedel SE, Clarke J, Fernandez JM
Proceedings of the National Academy of Sciences of USA 1999, 96, 3694-3699


The Structure Of A Pkd Domain From Polycystin-1: Implications For Polycystic Kidney Disease.
Bycroft M, Bateman A, Clarke J, Hamill SJ, Sandford R, Thomas RL, Chothia C
The EMBO Journal 1999, 18, 297-305 DOI: 10.1093/emboj/18.2.297


Afm And Chemical Unfolding Of A Single Protein Follow The Same Pathway
Carrion-Vazquez M, Oberhauser AF, Fowler SB, Marszalek PE, Broedel SE, Clarke J, Fernandez JM
Biophysical Journal 1999, 76, A173-A173


A Reply To Englander And Woodward
Clarke J, Itzhaki LS, Fersht AR
Trends in Biochemical Sciences 1998, 23, 379-381


The Dependence Of Chemical Exchange On Boundary Selection In A Fibronectin Type Iii Domain From Human Tenascin.
Meekhof AE, Hamill SJ, Arcus VL, Clarke J, Freund SM
Journal of Molecular Biology 1998, 282, 181-194 DOI: 10.1006/jmbi.1998.2019


The Effect Of Boundary Selection On The Stability And Folding Of The Third Fibronectin Type Iii Domain From Human Tenascin.
Hamill SJ, Meekhof AE, Clarke J
Biochemistry 1998, 37, 8071-8079 DOI: 10.1021/bi9801659


Characterisation Of Urea-Denatured States Of An Immunoglobulin Superfamily Domain By Heteronuclear Nmr.
Fong S, Bycroft M, Clarke J, Freund SM
Journal of Molecular Biology 1998, 278, 417-429 DOI: 10.1006/jmbi.1998.1702


Folding Intermediates Of Wild-Type And Mutants Of Barnase. Ii. Correlation Of Changes In Equilibrium Amide Exchange Kinetics With The Population Of The Folding Intermediate.
Dalby PA, Clarke J, Johnson CM, Fersht AR
Journal of Molecular Biology 1998, 276, 647-656 DOI: 10.1006/jmbi.1997.1547


Hydrogen Exchange And Protein Folding.
Clarke J, Itzhaki LS
Current Opinion in Structural Biology 1998, 8, 112-118


Characterization Of Residual Structure In The Thermally Denatured State Of Barnase By Simulation And Experiment: Description Of The Folding Pathway
Bond CJ, Wong KB, Clarke J, Fersht AR, Daggett V
Proceedings of the National Academy of Sciences of USA 1997, 94, 13409-13413


Folding And Stability Of A Fibronectin Type Iii Domain Of Human Tenascin.
Clarke J, Hamill SJ, Johnson CM
Journal of Molecular Biology 1997, 270, 771-778 DOI: 10.1006/jmbi.1997.1147


Thermodynamics Of Denaturation Of Mutants Of Barnase With Disulfide Crosslinks.
Johnson CM, Oliveberg M, Clarke J, Fersht AR
Journal of Molecular Biology 1997, 268, 198-208 DOI: 10.1006/jmbi.1997.0928


Hydrogen Exchange At Equilibrium: A Short Cut For Analysing Protein-Folding Pathways?
Clarke J, Itzhaki LS, Fersht AR
Trends in Biochemical Sciences 1997, 22, 284-287


Structure And Stability Of An Immunoglobulin Superfamily Domain From Twitchin, A Muscle Protein Of The Nematode Caenorhabditis Elegans.
Fong S, Hamill SJ, Proctor M, Freund SM, Benian GM, Chothia C, Bycroft M, Clarke J
Journal of Molecular Biology 1996, 264, 624-639 DOI: 10.1006/jmbi.1996.0665


An Evaluation Of The Use Of Hydrogen Exchange At Equilibrium To Probe Intermediates On The Protein Folding Pathway.
Clarke J, Fersht AR
Folding and Design 1996, 1, 243-254 DOI: 10.1016/S1359-0278(96)00038-7


Disulfide Mutants Of Barnase. Ii: Changes In Structure And Local Stability Identified By Hydrogen Exchange.
Clarke J, Hounslow AM, Fersht AR
Journal of Molecular Biology 1995, 253, 505-513 DOI: 10.1006/jmbi.1995.0569


Disulfide Mutants Of Barnase. I: Changes In Stability And Structure Assessed By Biophysical Methods And X-Ray Crystallography.
Clarke J, Henrick K, Fersht AR
Journal of Molecular Biology 1995, 253, 493-504 DOI: 10.1006/jmbi.1995.0568


Relationship Between Equilibrium Amide Proton Exchange Behavior And The Folding Pathway Of Barnase.
Perrett S, Clarke J, Hounslow AM, Fersht AR
Biochemistry 1995, 34, 9288-9298


Local Breathing And Global Unfolding In Hydrogen Exchange Of Barnase And Its Relationship To Protein Folding Pathways.
Clarke J, Hounslow AM, Bycroft M, Fersht AR
Proceedings of the National Academy of Sciences of USA 1993, 90, 9837-9841


Engineered Disulfide Bonds As Probes Of The Folding Pathway Of Barnase: Increasing The Stability Of Proteins Against The Rate Of Denaturation.
Clarke J, Fersht AR
Biochemistry 1993, 32, 4322-4329


Initiation Of Transcription By T7 Rna Polymerase As Its Natural Promoters.
Ikeda RA, Lin AC, Clarke J
Journal of Biological Chemistry 1992, 267, 2640-2649



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department of chemistry University of Cambridge