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Biological Research Interest Group
Chair: Dr Finian J. Leeper
Department of Chemistry
Biological RIG – Primary & Secondary Members
Protein Folding & Misfolding
Jane Clarke
Chris Dobson
Sophie Jackson
Michele Vendruscolo
Protein Function, Modification & Inhibition
Chris Abell
Paul Barker
Gonçalo Bernardes
Jason Chin (MRC LMB)
Finian Leeper
DNA Structure & Function
Shankar Balasubramanian
•  Andreas Bender (TMI)
•  Sally Boss (Materials)
•  Lucy Colwell (TMI)
•  Melinda Duer (Materials)
•  Matthew Gaunt (Synthesis)
•  Robert Glen (TMI)
•  David Klenerman (Physical)
•  Tuomas Knowles (Physical)
•  Steven F. Lee (Physical)
•  Steve Ley (Synthesis)
•  Erwin Reisner (Materials)
•  David Spring (Synthesis)
•  David Wales (TMI)
Chris M. Dobson
Cremades, Nunilo; Cohen, Samuel I. A.;
Deas, Emma; Abramov, Andrey Y.; Chen,
Allen Y.; Orte, Angel; Sandal, Massimo;
Clarke, Richard W.; Dunne, Paul; Aprile,
Francesco A.; Bertoncini, Carlos W.; Wood,
Nicholas W.; Knowles, Tuomas P. J.;
Dobson, Christopher
Direct Observation of the Interconversion
of Normal and Toxic Forms of alpha-
Synuclein
Cell, 2012, 149 (5), 1048-1059 doi:10.1016/
j.cell.2012.03.037
(citations 160)
Major Industrial Funding: Elan Pharmaceuticals
(acquired 2013 by Perrigo)
Tuomas P. J. Knowles
Georg Meisl, Julius B Kirkegaard, Paolo Arosio, Thomas C T Michaels, Michele Vendruscolo, Christopher M
Dobson, Sara Linse & Tuomas P J Knowles
Molecular mechanisms of protein aggregation from global fitting of kinetic models
Nature Protocols 2016, 11, 252–272 doi:10.1038/nprot.2016.010
Chris M. Dobson
Anthony W. P. Fitzpatrick, Galia T.
Debelouchina, Marvin J. Bayro, Daniel K.
Clare, Marc A. Caporini, Vikram S. Bajaj,
Christopher P. Jaroniec, Luchun Wang,
Vladimir Ladizhansky, Shirley A. Müller, Cait
E. MacPhee, Christopher A. Waudby,
Helen R. Mott, Alfonso De Simone, Tuomas
P. J. Knowles, Helen R. Saibil, Michele
Vendruscolo, Elena V. Orlova,
Robert G. Griffin, and Christopher M.
Dobson
Atomic structure and hierarchical
assembly of a cross-beta amyloid fibril
Proc. Natl. Acad. Sci. U. S. A., 2013, 110
(14), 5468-5473 doi:10.1073/pnas.
1219476110
(citations 112)
Camilloni, Carlo; De Simone, Alfonso; Vranken, Wim F.; Vendruscolo, Michele
Determination of Secondary Structure Populations in Disordered States of Proteins Using
Nuclear Magnetic Resonance Chemical Shifts
Biochemistry, 2012, 51 (11), 2224-2231 doi:10.1021/bi3001825 (citations 94)
Michele Vendruscolo
Cavalli, Andrea; Camilloni, Carlo; Vendruscolo, Michele
Molecular dynamics simulations with replica-averaged structural
restraints generate structural ensembles according to the
maximum entropy principle
J. Chem. Phys., 2013, 138 (9), no. 94112 doi:10.1063/1.4793625
(citations 42)
Michele Vendruscolo
Borgia, Madeleine B.; Borgia,
Alessandro; Best, Robert B.;
Steward, Annette; Nettels, Daniel;
Wunderlich, Bengt; Schuler,
Benjamin; Clarke, Jane,
Single-molecule fluorescence
reveals sequence-specific
misfolding in multidomain
protein
Nature, 2011, 474 (7353), 662-665
doi:10.1038/nature10099
(citations 56)
Jane Clarke
Rogers, Joseph M.; Steward, Annette; Clarke, Jane
Folding and Binding of an Intrinsically Disordered Protein: Fast, but Not 'Diffusion-Limited
J. Am. Chem. Soc., 2013, 135 (4), 1415-1422 doi:10.1021/ja309527h (citations 34)
Jane Clarke
Ye, Yu; Blaser, Georg; Horrocks,
Mathew H.; Ruedas-Rama, Maria
J.; Ibrahim, Shehu; Zhukov,
Alexander A.; Orte, Angel;
Klenerman, David; Jackson, Sophie
E.; Komander, David
Ubiquitin chain conformation
regulates recognition and activity
of interacting proteins
Nature, 2012, 492 (7428), 266-270
doi:10.1038/nature11722
(citations 46)
Sophie E. Jackson
Mallam, Anna L.; Jackson, Sophie E.
Knot formation in newly translated proteins is spontaneous and accelerated by chaperonins
Nat. Chem. Biol., 2012, 8 (2), 147-153 doi:10.1038/nchembio.742 (citations 38)
Sophie E. Jackson
Paul D. Barker
Sawyer, Elizabeth B.; Barker, Paul D.
Continued surprises in the cytochrome c
biogenesis story
Protein Cell, 2012, 3 (6), 405-409 doi:10.1007/
s13238-012-2912-x
(9 citations)
Scrase, Tom G.; O'Neill, Michael J.; Peel, Andrew J.;
Senior, Paul W.; Matthews, Peter D.; Shi, Heyao;
Boss, Sally R.; Barker, Paul D.
Selective Lability of Ruthenium(II) Arene Amino
Acid Complexes
Inorg. Chem., 2015, 54 (7), 3118-3124 doi:10.1021/
ic502051y
Paul D. Barker
Chris Abell
Ferguson, Fleur M.; Fedorov,
Oleg; Chaikuad, Apirat; Philpott,
Martin; Muniz, Joao R. C.;
Felletar, Ildiko; von Delft, Frank;
Heightman, Tom; Knapp,
Stefan; Abell, Chris; Ciulli,
Alessio
Targeting Low-Druggability
Bromodomains: Fragment
Based Screening and
Inhibitor Design against the
BAZ2B Bromodomain
J. Med. Chem., 2013, 56 (24),
10183-10187 doi:10.1021/
jm401582c (citations 29)
Cofounded Astex Pharmaceuticals
with Tom Blundell
Chris Abell
Zhang, Jing; Coulston,
Roger J.; Jones, Samuel
T.; Geng, Jin; Scherman,
Oren A.; Abell, Chris
One-Step Fabrication
of Supramolecular
Microcapsules from
Microfluidic Droplets
Science, 2012, 335
(6069), 690-694 doi:
10.1126/science.
1215416 (citations 142)
Cofounded: Aqdot
& Sphere Fluidics
Chalker, Justin M.; Gunnoo, Smita B.; Boutureira, Omar; Gerstberger, Stefanie C.; Fernandez-Gonzalez,
Marta; Bernardes, Goncalo J. L.; Griffin, Laura; Hailu, Hanna; Schofield, Christopher J.; Davis, Benjamin G.
Methods for converting cysteine to dehydroalanine on peptides and proteins
Chem. Sci., 2011, 2 (9), 1666-1676 doi:10.1039/c1sc00185j (53 citations)
Krall, Nikolaus; Pretto, Francesca; Decurtins,
Willy; Bernardes, Goncalo J. L.; Supuran,
Claudiu T.; Neri, Dario
A Small-Molecule Drug Conjugate for the
Treatment of Carbonic Anhydrase IX
Expressing Tumors
Angew. Chem.-Int. Edit., 2014, 53 (16),
4231-4235 doi:10.1002/anie.201310709
(46 citations)
Gonçalo J. L. Bernardes
Santos-Silva, Teresa; Mukhopadhyay, Abhik; Seixas, Joao D.; Bernardes, Goncalo J. L.; Romao, Carlos C.;
Romao, Maria J.
CORM-3 Reactivity toward Proteins: The Crystal Structure of a Ru(II) Dicarbonyl-Lysozyme Complex
J. Am. Chem. Soc., 2011, 133 (5), 1192-1195 doi:10.1021/ja108820s (69 citations)
Gonçalo J. L. Bernardes
Chayasith Uttamapinant, Jonathan D. Howe, Kathrin Lang, Václav Beránek, Lloyd Davis, Mohan Mahesh,
Nicholas P. Barry, and Jason W. Chin
Genetic Code Expansion Enables Live-Cell and Super-Resolution Imaging of Site-Specifically
Labeled Cellular Proteins
J. Am. Chem. Soc., 2015, 137 (14), 4602–4605, doi: 10.1021/ja512838z
Jason W. Chin (LMB)
actin filaments in live COS-7 cells
Stoeckmann, Henning; Neves, Andre A.; Stairs, Shaun; Ireland-Zecchini, Heather; Brindle, Kevin M.; Leeper,
Finian J. Development and evaluation of new cyclooctynes for cell surface glycan imaging in cancer
cells, Chem. Sci., 2011, 2 (5), 932-936 doi:10.1039/c0sc00631a (citations 31)
Finian J. Leeper
Matilla, Miguel A.;
Stoeckmann, Henning;
Leeper, Finian J.; Salmond,
George P. C.
Bacterial Biosynthetic
Gene Clusters Encoding
the Anti-cancer
Haterumalide Class of
Molecules
J. Biol. Chem., 2012, 287
(46), 39125-39138 doi:
10.1074/jbc.M112.401026
Finian J. Leeper
oocydin
Shankar Balasubramanian
Biffi, Giulia; Tannahill, David; McCafferty, John;
Balasubramanian, Shankar
Quantitative visualization of DNA G-quadruplex
structures in human cells
Nat. Chem., 2013, 5 (3), 182-186 doi:10.1038/
NCHEM.1548 (citations 390)
Shankar Balasubramanian
Booth, Michael J.; Branco, Miguel R.; Ficz, Gabriella; Oxley, David; Krueger, Felix; Reik, Wolf;
Balasubramanian, Shankar
Quantitative Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base
Resolution
Science, 2012, 336 (6083), 934-937 doi:10.1126/science.1220671 (citations 271)
Cofounded: Solexa, now Illumina Sequencing
Centre for Biological Chemistry
Isothermal Calorimetry
Surface Plasmon
Resonance
Circular
Dichroism
Stopped-flow
Kinetics
Microscale
Thermophoresis
Basement
Fermentation and
Biophysics Equipment
(Molecular Production and Characterisation Centre)
Chemistry of Health Building
1st & 2nd Floors
Dobson, Vendruscolo
and Knowles Groups
Ground Floor
Meeting Rooms and
Start-up Company
Incubator
Biological RIG – Primary & Secondary Members
Protein Folding & Misfolding
Jane Clarke
Chris Dobson
Sophie Jackson
Michele Vendruscolo
Protein Function, Modification & Inhibition
Chris Abell
Paul Barker
Gonçalo Bernardes
Jason Chin (MRC LMB)
Finian Leeper
DNA Structure & Function
Shankar Balasubramanian
•  Andreas Bender (TMI)
•  Sally Boss (Materials)
•  Lucy Colwell (TMI)
•  Melinda Duer (Materials)
•  Matthew Gaunt (Synthesis)
•  Robert Glen (TMI)
•  David Klenerman (Physical)
•  Tuomas Knowles (Physical)
•  Steven F. Lee (Physical)
•  Steve Ley (Synthesis)
•  Erwin Reisner (Materials)
•  David Spring (Synthesis)
•  David Wales (TMI)

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Biological RIG

  • 1. Biological Research Interest Group Chair: Dr Finian J. Leeper Department of Chemistry
  • 2. Biological RIG – Primary & Secondary Members Protein Folding & Misfolding Jane Clarke Chris Dobson Sophie Jackson Michele Vendruscolo Protein Function, Modification & Inhibition Chris Abell Paul Barker Gonçalo Bernardes Jason Chin (MRC LMB) Finian Leeper DNA Structure & Function Shankar Balasubramanian •  Andreas Bender (TMI) •  Sally Boss (Materials) •  Lucy Colwell (TMI) •  Melinda Duer (Materials) •  Matthew Gaunt (Synthesis) •  Robert Glen (TMI) •  David Klenerman (Physical) •  Tuomas Knowles (Physical) •  Steven F. Lee (Physical) •  Steve Ley (Synthesis) •  Erwin Reisner (Materials) •  David Spring (Synthesis) •  David Wales (TMI)
  • 3. Chris M. Dobson Cremades, Nunilo; Cohen, Samuel I. A.; Deas, Emma; Abramov, Andrey Y.; Chen, Allen Y.; Orte, Angel; Sandal, Massimo; Clarke, Richard W.; Dunne, Paul; Aprile, Francesco A.; Bertoncini, Carlos W.; Wood, Nicholas W.; Knowles, Tuomas P. J.; Dobson, Christopher Direct Observation of the Interconversion of Normal and Toxic Forms of alpha- Synuclein Cell, 2012, 149 (5), 1048-1059 doi:10.1016/ j.cell.2012.03.037 (citations 160) Major Industrial Funding: Elan Pharmaceuticals (acquired 2013 by Perrigo)
  • 4. Tuomas P. J. Knowles Georg Meisl, Julius B Kirkegaard, Paolo Arosio, Thomas C T Michaels, Michele Vendruscolo, Christopher M Dobson, Sara Linse & Tuomas P J Knowles Molecular mechanisms of protein aggregation from global fitting of kinetic models Nature Protocols 2016, 11, 252–272 doi:10.1038/nprot.2016.010
  • 5. Chris M. Dobson Anthony W. P. Fitzpatrick, Galia T. Debelouchina, Marvin J. Bayro, Daniel K. Clare, Marc A. Caporini, Vikram S. Bajaj, Christopher P. Jaroniec, Luchun Wang, Vladimir Ladizhansky, Shirley A. Müller, Cait E. MacPhee, Christopher A. Waudby, Helen R. Mott, Alfonso De Simone, Tuomas P. J. Knowles, Helen R. Saibil, Michele Vendruscolo, Elena V. Orlova, Robert G. Griffin, and Christopher M. Dobson Atomic structure and hierarchical assembly of a cross-beta amyloid fibril Proc. Natl. Acad. Sci. U. S. A., 2013, 110 (14), 5468-5473 doi:10.1073/pnas. 1219476110 (citations 112)
  • 6. Camilloni, Carlo; De Simone, Alfonso; Vranken, Wim F.; Vendruscolo, Michele Determination of Secondary Structure Populations in Disordered States of Proteins Using Nuclear Magnetic Resonance Chemical Shifts Biochemistry, 2012, 51 (11), 2224-2231 doi:10.1021/bi3001825 (citations 94) Michele Vendruscolo
  • 7. Cavalli, Andrea; Camilloni, Carlo; Vendruscolo, Michele Molecular dynamics simulations with replica-averaged structural restraints generate structural ensembles according to the maximum entropy principle J. Chem. Phys., 2013, 138 (9), no. 94112 doi:10.1063/1.4793625 (citations 42) Michele Vendruscolo
  • 8. Borgia, Madeleine B.; Borgia, Alessandro; Best, Robert B.; Steward, Annette; Nettels, Daniel; Wunderlich, Bengt; Schuler, Benjamin; Clarke, Jane, Single-molecule fluorescence reveals sequence-specific misfolding in multidomain protein Nature, 2011, 474 (7353), 662-665 doi:10.1038/nature10099 (citations 56) Jane Clarke
  • 9. Rogers, Joseph M.; Steward, Annette; Clarke, Jane Folding and Binding of an Intrinsically Disordered Protein: Fast, but Not 'Diffusion-Limited J. Am. Chem. Soc., 2013, 135 (4), 1415-1422 doi:10.1021/ja309527h (citations 34) Jane Clarke
  • 10. Ye, Yu; Blaser, Georg; Horrocks, Mathew H.; Ruedas-Rama, Maria J.; Ibrahim, Shehu; Zhukov, Alexander A.; Orte, Angel; Klenerman, David; Jackson, Sophie E.; Komander, David Ubiquitin chain conformation regulates recognition and activity of interacting proteins Nature, 2012, 492 (7428), 266-270 doi:10.1038/nature11722 (citations 46) Sophie E. Jackson
  • 11. Mallam, Anna L.; Jackson, Sophie E. Knot formation in newly translated proteins is spontaneous and accelerated by chaperonins Nat. Chem. Biol., 2012, 8 (2), 147-153 doi:10.1038/nchembio.742 (citations 38) Sophie E. Jackson
  • 12. Paul D. Barker Sawyer, Elizabeth B.; Barker, Paul D. Continued surprises in the cytochrome c biogenesis story Protein Cell, 2012, 3 (6), 405-409 doi:10.1007/ s13238-012-2912-x (9 citations)
  • 13. Scrase, Tom G.; O'Neill, Michael J.; Peel, Andrew J.; Senior, Paul W.; Matthews, Peter D.; Shi, Heyao; Boss, Sally R.; Barker, Paul D. Selective Lability of Ruthenium(II) Arene Amino Acid Complexes Inorg. Chem., 2015, 54 (7), 3118-3124 doi:10.1021/ ic502051y Paul D. Barker
  • 14. Chris Abell Ferguson, Fleur M.; Fedorov, Oleg; Chaikuad, Apirat; Philpott, Martin; Muniz, Joao R. C.; Felletar, Ildiko; von Delft, Frank; Heightman, Tom; Knapp, Stefan; Abell, Chris; Ciulli, Alessio Targeting Low-Druggability Bromodomains: Fragment Based Screening and Inhibitor Design against the BAZ2B Bromodomain J. Med. Chem., 2013, 56 (24), 10183-10187 doi:10.1021/ jm401582c (citations 29) Cofounded Astex Pharmaceuticals with Tom Blundell
  • 15. Chris Abell Zhang, Jing; Coulston, Roger J.; Jones, Samuel T.; Geng, Jin; Scherman, Oren A.; Abell, Chris One-Step Fabrication of Supramolecular Microcapsules from Microfluidic Droplets Science, 2012, 335 (6069), 690-694 doi: 10.1126/science. 1215416 (citations 142) Cofounded: Aqdot & Sphere Fluidics
  • 16. Chalker, Justin M.; Gunnoo, Smita B.; Boutureira, Omar; Gerstberger, Stefanie C.; Fernandez-Gonzalez, Marta; Bernardes, Goncalo J. L.; Griffin, Laura; Hailu, Hanna; Schofield, Christopher J.; Davis, Benjamin G. Methods for converting cysteine to dehydroalanine on peptides and proteins Chem. Sci., 2011, 2 (9), 1666-1676 doi:10.1039/c1sc00185j (53 citations) Krall, Nikolaus; Pretto, Francesca; Decurtins, Willy; Bernardes, Goncalo J. L.; Supuran, Claudiu T.; Neri, Dario A Small-Molecule Drug Conjugate for the Treatment of Carbonic Anhydrase IX Expressing Tumors Angew. Chem.-Int. Edit., 2014, 53 (16), 4231-4235 doi:10.1002/anie.201310709 (46 citations) Gonçalo J. L. Bernardes
  • 17. Santos-Silva, Teresa; Mukhopadhyay, Abhik; Seixas, Joao D.; Bernardes, Goncalo J. L.; Romao, Carlos C.; Romao, Maria J. CORM-3 Reactivity toward Proteins: The Crystal Structure of a Ru(II) Dicarbonyl-Lysozyme Complex J. Am. Chem. Soc., 2011, 133 (5), 1192-1195 doi:10.1021/ja108820s (69 citations) Gonçalo J. L. Bernardes
  • 18. Chayasith Uttamapinant, Jonathan D. Howe, Kathrin Lang, Václav Beránek, Lloyd Davis, Mohan Mahesh, Nicholas P. Barry, and Jason W. Chin Genetic Code Expansion Enables Live-Cell and Super-Resolution Imaging of Site-Specifically Labeled Cellular Proteins J. Am. Chem. Soc., 2015, 137 (14), 4602–4605, doi: 10.1021/ja512838z Jason W. Chin (LMB) actin filaments in live COS-7 cells
  • 19. Stoeckmann, Henning; Neves, Andre A.; Stairs, Shaun; Ireland-Zecchini, Heather; Brindle, Kevin M.; Leeper, Finian J. Development and evaluation of new cyclooctynes for cell surface glycan imaging in cancer cells, Chem. Sci., 2011, 2 (5), 932-936 doi:10.1039/c0sc00631a (citations 31) Finian J. Leeper
  • 20. Matilla, Miguel A.; Stoeckmann, Henning; Leeper, Finian J.; Salmond, George P. C. Bacterial Biosynthetic Gene Clusters Encoding the Anti-cancer Haterumalide Class of Molecules J. Biol. Chem., 2012, 287 (46), 39125-39138 doi: 10.1074/jbc.M112.401026 Finian J. Leeper oocydin
  • 21. Shankar Balasubramanian Biffi, Giulia; Tannahill, David; McCafferty, John; Balasubramanian, Shankar Quantitative visualization of DNA G-quadruplex structures in human cells Nat. Chem., 2013, 5 (3), 182-186 doi:10.1038/ NCHEM.1548 (citations 390)
  • 22. Shankar Balasubramanian Booth, Michael J.; Branco, Miguel R.; Ficz, Gabriella; Oxley, David; Krueger, Felix; Reik, Wolf; Balasubramanian, Shankar Quantitative Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base Resolution Science, 2012, 336 (6083), 934-937 doi:10.1126/science.1220671 (citations 271) Cofounded: Solexa, now Illumina Sequencing
  • 23. Centre for Biological Chemistry Isothermal Calorimetry Surface Plasmon Resonance Circular Dichroism Stopped-flow Kinetics Microscale Thermophoresis
  • 24. Basement Fermentation and Biophysics Equipment (Molecular Production and Characterisation Centre) Chemistry of Health Building 1st & 2nd Floors Dobson, Vendruscolo and Knowles Groups Ground Floor Meeting Rooms and Start-up Company Incubator
  • 25. Biological RIG – Primary & Secondary Members Protein Folding & Misfolding Jane Clarke Chris Dobson Sophie Jackson Michele Vendruscolo Protein Function, Modification & Inhibition Chris Abell Paul Barker Gonçalo Bernardes Jason Chin (MRC LMB) Finian Leeper DNA Structure & Function Shankar Balasubramanian •  Andreas Bender (TMI) •  Sally Boss (Materials) •  Lucy Colwell (TMI) •  Melinda Duer (Materials) •  Matthew Gaunt (Synthesis) •  Robert Glen (TMI) •  David Klenerman (Physical) •  Tuomas Knowles (Physical) •  Steven F. Lee (Physical) •  Steve Ley (Synthesis) •  Erwin Reisner (Materials) •  David Spring (Synthesis) •  David Wales (TMI)