Hollfelder Lab

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[1] Dalby, K. N.; Hollfelder, F.; Kirby, A. J., Electrostatic Catalysis of the Hydrolysis of a Phosphate Diester in Water. Journal of the Chemical Society-Chemical Communications 1992,  (24), 1770-1771.
[2] Dalby, K. N.; Kirby, A. J.; Hollfelder, F., Models for Nuclease Catalysis - Mechanisms for General Acid Catalysis of the Rapid Intramolecular Displacement of Methoxide from a Phosphate Diester. Journal of the Chemical Society-Perkin Transactions 2 1993,  (7), 1269-1281.
[3] Chandler, A. J.; Hollfelder, F.; Kirby, A. J.; Ocarroll, F.; Stromberg, R., Models for Enzyme-Catalyzed Phosphate Transfer - Comparisons of Reactivity Towards a Neighboring Hydroxy Group for Phosphodiester Anions and Acids - General Base Catalysis of the Cyclization of a Hydroxyalkyl Phosphate Triester. Journal of the Chemical Society-Perkin Transactions 2 1994,  (2), 327-333.
[4] Dalby, K. N.; Kirby, A. J.; Hollfelder, F., Simple but Efficient Models for Nuclease Catalysis. Pure and Applied Chemistry 1994, 66 (4), 687-694.
[5] Hollfelder, F.; Herschlag, D., The Nature of the Transition-State for Enzyme-Catalyzed Phosphoryl Transfer - Hydrolysis of O-Aryl Phosphorothioates by Alkaline-Phosphatase. Biochemistry 1995, 34 (38), 12255-12264.
[6] Hollfelder, F.; Kirby, A. J.; Tawfik, D. S., Off-the-shelf proteins that rival tailor-made antibodies as catalysts. Nature 1996, 383 (6595), 60-63.
[7] Genre-Grandpierre, A.; Tellier, C.; Loirat, M. J.; Blanchard, D.; Hodgson, D. R. W.; Hollfelder, F.; Kirby, A. J., Catalysis of the Kemp elimination by antibodies elicited against a cationic hapten. Bioorganic & Medicinal Chemistry Letters 1997, 7 (19), 2497-2502.
[8] Hollfelder, F.; Kirby, A. J.; Tawfik, D. S., Efficient catalysis of proton transfer by synzymes. Journal of the American Chemical Society 1997, 119 (40), 9578-9579.
[9] Kirby, A. J.; Hollfelder, F.; Tawfik, D. S., Nonspecific catalysis by protein surfaces. Applied Biochemistry and Biotechnology 2000, 83 (1-3), 173-180.
[10] Zhang, Y. L.; Hollfelder, F.; Gordon, S. J.; Chen, L.; Keng, Y. F.; Wu, L.; Herschlag, D.; Zhang, Z. Y., Impaired transition state complementarity in the hydrolysis of O-arylphosphorothioates by protein-tyrosine phosphatases. Biochemistry 1999, 38 (37), 12111-12123.
[11] Hollfelder, F.; Kirby, A. J.; Tawfik, D. S.; Kikuchi, K.; Hilvert, D., Characterization of proton-transfer catalysis by serum albumins. Journal of the American Chemical Society 2000, 122 (6), 1022-1029.
[12] Perez-Juste, J.; Hollfelder, F.; Kirby, A. J.; Engberts, J. B. F. N., Vesicles accelerate proton transfer from carbon up to 850-fold. Organic Letters 2000, 2 (2), 127-130..
[13] Hollfelder, F.; Kirby, A. J.; Tawfik, D. S., On the magnitude and specificity of medium effects in enzyme-like catalysts for proton transfer. Journal of Organic Chemistry 2001, 66 (17), 5866-5874.
[14] Heddle, J. G.; Blance, S. J.; Zamble, D. B.; Hollfelder, F.; Miller, D. A.; Wentzell, L. M.; Walsh, C. T.; Maxwell, A., The antibiotic microcin B17 is a DNA gyrase poison: Characterisation of the mode of inhibition. Journal of Molecular Biology 2001, 307 (5), 1223-1234.
[15] Zamble, D. B.; Miller, D. A.; Heddle, J. G.; Maxwell, A.; Walsh, C. T.; Hollfelder, F., In vitro characterization of DNA gyrase inhibition by microcin B17 analogs with altered bisheterocyclic sites. Proceedings of the National Academy of Sciences of the United States of America 2001, 98 (14), 7712-7717.
 [16] Guiry, P. J.; Hollfelder, F., Highlights from the 37th ESF/EUCHEM conference on stereochemistry, Bürgenstock, Switzerland, . Chem Commun (Camb) 2002, 21, XVIII-XIX.
[17] Lindner, A.; Hollfelder, F., The Evolution of Catalysis. ChemBioChem 2004, 5, 241.
[18] Leemhuis, H.; Stein, V.; Griffiths, A. D.; Hollfelder, F., New genotype-phenotype linkages for directed evolution of functional proteins. Current Opinion in Structural Biology 2005, 15 (4), 472-478.
[19] Kirby, A. J.; Gesser, J. C.; Hollfelder, F.; Priebe, J. P.; Nome, F., Intramolecular general acid catalysis of sulfate transfer - Nucleophilic attack by oxyanions on the SO3- group. Canadian Journal of Chemistry-Revue Canadienne De Chimie 2005, 83 (9), 1629-1636.
[20] Baxter, N. J.; Olguin, L. F.; Golicnik, M.; Feng, G.; Hounslow, A. M.; Bermel, W.; Blackburn, G. M.; Hollfelder, F.; Waltho, J. P.; Williams, N. H., A Trojan horse transition state analogue generated by MgF3- formation in an enzyme active site. Proceedings of the National Academy of Sciences of the United States of America 2006, 103 (40), 14732-14737.
[21] Otten, L. G.; Schaffer, M. L.; Villiers, B. R.; Stachelhaus, T.; Hollfelder, F., An optimized ATP/PP(i)-exchange assay in 96-well format for screening of adenylation domains for applications in combinatorial biosynthesis. Biotechnol J 2007, 2 (2), 232-40.
[22] Van Vliet, L. D.; Ellis, T.; Foley, P. J.; Liu, L. G.; Pfeffer, F. M.; Russell, R. A.; Warrener, R. N.; Hollfelder, F.; Waring, M. J., Molecular recognition of DNA by rigid [n]-polynorbornane-derived bifunctional intercalators: Synthesis and evaluation of their binding properties. Journal of Medicinal Chemistry 2007, 50 (10), 2326-2340.
[23] Nightingale, K. P.; Gendreizig, S.; White, D. A.; Bradbury, C.; Hollfelder, F.; Turner, B. M., Cross-talk between histone modifications in response to histone deacetylase inhibitors - MLL4 links histone H3 acetylation and histone H3K4 methylation. Journal of Biological Chemistry 2007, 282 (7), 4408-4416.
[24] Huebner, A.; Srisa-Art, M.; Holt, D.; Abell, C.; Hollfelder, F.; Demello, A. J.; Edel, J. B., Quantitative detection of protein expression in single cells using droplet microfluidics. Chemical Communications 2007,  (12), 1218-1220.
[25] Avenier, F.; Domingos, J. B.; Van Vliet, L. D.; Hollfelder, F., Polyethylene imine derivatives ('Synzymes') accelerate phosphate transfer in the absence of metal. Journal of the American Chemical Society 2007, 129 (24), 7611-7619.
[26] Otten, L. G.; Schaffer, M. L.; Villiers, B. R.; Stachelhaus, T.; Hollfelder, F., An optimized ATP/PP(i)-exchange assay in 96-well format for screening of adenylation domains for applications in combinatorial biosynthesis. Biotechnol J 2007, 2 (2), 232-40.

[27] Stein, V.; Sielaff, I.; Johnsson, K.; Hollfelder, F., A covalent chemical genotype-phenotype linkage for in vitro protein evolution. Chembiochem 2007, 8 (18), 2191-2194.
[28] Courtois, F.; Olguin, L. F.; Whyte, G.; Bratton, D.; Huck, W. T. S.; Abell, C.; Hollfelder, F., An integrated device for monitoring time-dependent in vitro expression from single genes in picolitre droplets. Chembiochem 2008, 9 (3), 439-446.
[29] Baxter, N. J.; Blackburn, G. M.; Marston, J. P.; Hounslow, A. M.; Cliff, M. J.; Bermel, W.; Williams, N. H.; Hollfelder, F.; Wemmer, D. E.; Waltho, J. P., Anionic charge is prioritized over geometry in aluminum and magnesium fluoride transition state analogs of phosphoryl transfer enzymes. Journal of the American Chemical Society 2008, 130 (12), 3952-3958.
[29] Leemhuis, H.; Packman, L. C.; Nightingale, K. P.; Hollfelder, F., The human histone acetyltransferase P/CAF is a promiscuous histone propionyltransferase. Chembiochem 2008, 9 (4), 499-503.
[30] Huebner, A.; Olguin, L. F.; Bratton, D.; Whyte, G.; Huck, W. T. S.; de Mello, A. J.; Edel, J. B.; Abell, C.; Hollfelder, F., Development of quantitative cell-based enzyme assays in microdroplets. Analytical Chemistry 2008, 80 (10), 3890-3896.
[31] Huebner, A.; Sharma, S.; Srisa-Art, M.; Hollfelder, F.; Edel, J. B.; Demello, A. J., Microdroplets: A sea of applications? Lab on a Chip 2008, 8 (8), 1244-1254.
[32] Van Vliet, L. D.; Chapman, M. R.; Avenier, F.; Kitson, C. Z.; Hollfelder, F., Relating chemical and biological diversity space: A tunable system for efficient gene transfection. Chembiochem 2008, 9 (12), 1960-1967.
[33] Jonas, S.; Hollfelder, F., Mechanism and Catalytic Promiscuity: Emerging Mechanistic Principles for Identification and Manipulation of Catalytically Promiscuous Enzymes. In The Handbook of Protein Engineering, Bornscheuer, U. T.; Lutz, S., Eds. Wiley-VCH: Chichester, 2008; Vol. 1, pp 47–72. (ISBN 978-3-527-31850-6)
[32] Jonas, S.; van Loo, B.; Hyvonen, M.; Hollfelder, F., A New Member of the Alkaline Phosphatase Superfamily with a Formylglycine Nucleophile: Structural and Kinetic Characterisation of a Phosphonate Monoester Hydrolase/Phosphodiesterase from Rhizobium leguminosarum. Journal of Molecular Biology 2008, 384 (1), 120-136.
[33] Leemhuis, H.; Nightingale, K. P.; Hollfelder, F., Directed evolution of a histone acetyltransferase - enhancing thermostability, whilst maintaining catalytic activity and substrate specificity. Febs Journal 2008, 275 (22), 5635-5647.
[34] Olguin, L. F.; Askew, S. E.; O'Donoghue, A. C.; Hollfelder, F., Efficient Catalytic Promiscuity in an Enzyme Superfamily: An Arylsulfatase Shows a Rate Acceleration of 10(13) for Phosphate Monoester Hydrolysis. Journal of the American Chemical Society 2008, 130 (49), 16547-16555.
[35] Golicnik, M.; Olguin, L. F.; Feng, G. Q.; Baxter, N. J.; Waltho, J. P.; Williams, N. H.; Hollfelder, F., Kinetic Analysis of beta-Phosphoglucomutase and Its Inhibition by Magnesium Fluoride. Journal of the American Chemical Society 2009, 131 (4), 1575-1588.
[36] Huebner, A.; Bratton, D.; Whyte, G.; Yang, M.; deMello, A. J.; Abell, C.; Hollfelder, F., Static microdroplet arrays: a microfluidic device for droplet trapping, incubation and release for enzymatic and cell-based assays. Lab on a Chip 2009, 9 (5), 692-698.
[37] Villiers, B. R. M.; Hollfelder, F., Mapping the Limits of Substrate Specificity of the Adenylation Domain of TycA. Chembiochem 2009, 10 (4), 671-682.
[38] Schaerli, Y.; Wootton, R. C.; Robinson, T.; Stein, V.; Dunsby, C.; Neil, M. A. A.; French, P. M. W.; deMello, A. J.; Abell, C.; Hollfelder, F., Continuous-Flow Polymerase Chain Reaction of Single-Copy DNA in Microfluidic Microdroplets. Analytical Chemistry 2009, 81 (1), 302-306.
[39] Kirby, A. J.; Hollfelder, F., Biochemistry: Enzymes under the nanoscope. Nature 2008, 456 (7218), 45-7.
[40] Damean, N.; Olguin, L. F.; Hollfelder, F.; Abell, C.; Huck, W. T. S., Simultaneous measurement of reactions in microdroplets filled by concentration gradients. Lab on a Chip 2009, 9 (12), 1707-1713.
[41] Courtois, F.; Olguin, L. F.; Whyte, G.; Theberge, A. B.; Huck, W. T. S.; Hollfelder, F.; Abell, C., Controlling the Retention of Small Molecules in Emulsion Microdroplets for Use in Cell-Based Assays. Analytical Chemistry 2009, 81 (8), 3008-3016.
[42] Jonas, S.; Hollfelder, F., Mapping catalytic promiscuity in the alkaline phosphatase superfamily. Pure and Applied Chemistry 2009, 81 (4), 731-742.
[43] Babtie, A. C.; Bandyopadhyay, S.; Olguin, L. F.; Hollfelder, F., Efficient Catalytic Promiscuity for Chemically Distinct Reactions. Angewandte Chemie-International Edition 2009, 48 (20), 3692-3694.
[44] Hufnagel, H.; Hakim, P.; Lima, A.; Hollfelder, F., Fluid Phase Endocytosis Contributes to Transfection of DNA by PEI-25. Mol. Therapy 2009, 9(11):1576-82.
[45] Stein, V.; Hollfelder, F., An efficient method to assemble linear DNA templates for in vitro screening and selection systems. Nucleic Acids Res 2009, 37 (18), e122., available online.
[46] Avenier, F.; Hollfelder, F., Combining Medium Effects and Cofactor Catalysis: Metal-coordinated Synzymes Accelerate Phosphate Transfer by 10e8. Chemistry-a European Journal 2009,15 (45), 12371-12380. available online.

[47] Schaerli, Y.; Hollfelder, F., The potential of microfluidic water-in-oil droplets in experimental biology. Mol Bio Sys 2009, 5(12), 1392-404., available online
[48] Shim, J.-U.; Olguin, L. F.; Whyte, G.; Scott, D.; Babtie, A. C.; Abell, C.; Huck, W. T. S.; Hollfelder, F., Simultaneous determination of gene expression and enzymatic activity in individual bacterial cells in microdroplet compartments. J. Am. Chem. Soc. 2009, 131 (42), 15251-6.
[49] Robinson, T.; Schaerli, Y.; Wootton, R.; Hollfelder, F.; Dunsby, C.; Baldwin, G.; Neil, M.; French, P.; Demello, A., Removal of background signals from fluorescence thermometry measurements in PDMS microchannels using fluorescence lifetime imaging. Lab Chip 2009, 9 (23), 3437-41., available online. .
[50] van Loo, B.; Hollfelder, F., Enzyme promiscuity and evolution of new protein functions. In Manual of Industrial Microbiology and Biotechnology, 3rd ed.; Zhao, H., Ed. American Society for Microbiology: Washington, 2009; p in press.
[51] Kaltenbach, M.; Schärli, Y.; Hollfelder, F., Microdroplets - A Tool for Protein Engineering. BioForum 2009, 13, 19-21.
[52] Kirby, A. J.; Hollfelder, F., From Enzyme Models to Model Enzymes. Royal Society of Chemistry Cambridge, 2009.
[53] Hufnagel, H.; Huebner, A.; Gulch, C.; Guse, K.; Abell, C.; Hollfelder, F., An integrated cell culture lab on a chip: modular microdevices for cultivation of mammalian cells and delivery into microfluidic microdroplets. Lab on a Chip 2009, 9 (11), 1576-1582.
[54] Courtois, F.; Huebner, A.; Stein, V.; Olguin, L.; Hollfelder, F., Towards biological experimentation in microfludic microdroplets. La Houille Blanche 2009, 5, 127-133.
[51] Villiers, B. R.; Stein, V.; Hollfelder, F., USER friendly DNA recombination (USERec): a simple and flexible near homology-independent method for gene library construction. Protein Eng Des Sel 2010, 23 (1), 1-8.
[55] Bai, Y.; He, X.; Liu, D.; Patil, S. N.; Bratton, D.; Huebner, A.; Hollfelder, F.; Abell, C.; Huck, W. T. S., A double droplet trap system for studying mass transport across a droplet-droplet interface. Lab Chip 2010, 10 (10), 1281-5. available online.
[56] van Loo, B.; Jonas, S.; Babtie, A. C.; Benjdia, A.; Berteau, O.; Hyvönen, M.; Hollfelder, F., An efficient, multiply promiscuous hydrolase in the alkaline phosphatase superfamily. Proc. Natl Acad. Sci USA 2010, 107 (7), 2740-5.
[57] Babtie, A. C.; Tokuriki, N.; Hollfelder, F., What makes an enzyme promiscuous? Curr. Op. Chem. Biol 2010, 14 (2), 200-7. available online.
[58] Theberge, A.; Courtois, F.; Schaerli, Y.; Fischlechner, M.; Abell, C.; Hollfelder, F.; Huck, W. T. S., Microdroplets in microfluidics: an evolving platform for discoveries in chemistry and biology. Angewandte Chemie-International Edition 2010, 49 (34), 5846-68.
[59] Kintses, B.; van Vliet, L.; Devenish, S.; Hollfelder, F., Microfluidic Droplets: New Integrated Workflows for Biological Experiments. Curr. Op. Chem. Biol. 2010, 14 (5), 548-55.
[60] Schaerli, Y.; Stein, V.; Spiering, M. M.; Benkovic, S. J.; Abell, C.; Hollfelder, F., Isothermal DNA amplification using the T4 replisome: circular nicking endonuclease-dependent amplification and primase-based whole-genome amplification. Nucleic Acids Res 2010, 38 (22), e201.
[60] O'Brien, P. J.; Hollfelder, F., Hitting a moving target?—understanding how conformational diversity impacts enzymatic catalysis. Curr. Op. Chem. Biol. 2010, 14(5):634-5.
[61] Huebner, A. M.; Abell, C.; Huck, W. T.; Baroud, C. N.; Hollfelder, F., Monitoring a Reaction at Submillisecond Resolution in Picoliter Volumes. Anal Chem 2011, 83 (4), 1462-8. available online.
[62] Shim, J. U.; Patil, S. N.; Hodgkinson, J. T.; Bowden, S. D.; Spring, D. R.; Welch, M.; Huck, W. T.; Hollfelder, F.; Abell, C., Controlling the contents of microdroplets by exploiting the permeability of PDMS. Lab Chip 2011, available online.
[63] Hollfelder, F., From fascination to function. Curr Opin Biotechnol 2011, 22 (4), 473-4.
[64] Kaltenbach, M.; Stein, V.; Hollfelder, F., SNAP Dendrimers: Multivalent Protein Display on Dendrimer-Like DNA for Directed Evolution. Chembiochem 2011, 12(14):2208-16.
[65] Villiers, B. R.; Hollfelder, F., Narrowing the Size Selectivity of an A-domain by Directed Evolution. Chemistry & Biology 2011, in the press. available online.
[66] Delley, R. J.; Bandyopadhyay, S.; Fox, M. A.; Schliehe, C.; Hodgson, D. R. W.; Hollfelder, F.; Kirby, A. J.; O'Donoghue, A.-M. C., Peri-dimethylamino substituent effects on proton transfer at carbon in α-naphthylacetate esters: a model for mandelate racemase. Org. Biomol. Chem. 2011, in the press.
[67] Kaltenbach, M.; Hollfelder, F., SNAP display: In vitro protein evolution in microdroplets. In Ribosome Display and Related Technologies: Methods and Protocols (Methods in Molecular Biology), Jackson, R. H.; Douthwaite, J. A., Eds. Humana Press (Springer Protocols): London, 2011; in the press (to be published on 28 November 2011).
[68] Stein, V.; Kaltenbach, M.; Hollfelder, F., Assembling Linear DNA Templates for In Vitro Transcription and Translation. In Functional Genomics: Methods and Protocols, Kaufmann, M.; Klinger, C., Eds. Humana Press (Springer Protocols): London, 2011; in the press.