Benjamin Allen

Assistant Research Professor

Benjamin Allen

Research Summary

Computational approaches to protein engineering; Using protein structure to guide bioinformatics for projects including identification of malaria vaccine targets

Huck Affiliations

Links

Publication Tags

Proteins Iron Carbon Hydrogen Oxygenases Oxygen Substrates Molecular Structure Glutarates Tyrosine Ferryl Iron Laser Spectroscopy Ultrafast Lasers Modulation Atoms Protein Mixed Function Oxygenases Protein Aggregates Alpha Ketoglutaric Acid Verruculogen Enzymes Ligands Vanadium X Rays Hydroxylation

Most Recent Papers

Evidence for Modulation of Oxygen Rebound Rate in Control of Outcome by Iron(II)- And 2-Oxoglutarate-Dependent Oxygenases

Juan Pan, Eliott S. Wenger, Megan L. Matthews, Christopher J. Pollock, Minakshi Bhardwaj, Amelia J. Kim, Benjamin D. Allen, Robert B. Grossman, Carsten Krebs, J. Martin Bollinger, 2019, Journal of the American Chemical Society on p. 15153-15165

Hydrogen Donation but not Abstraction by a Tyrosine (Y68) during Endoperoxide Installation by Verruculogen Synthase (FtmOx1)

Noah P. Dunham, José M. Del Río Pantoja, Bo Zhang, Lauren J. Rajakovich, Benjamin D. Allen, Carsten Krebs, Amie K. Boal, J. Martin Bollinger, 2019, Journal of the American Chemical Society on p. 9964-9979

Metal-free class Ie ribonucleotide reductase from pathogens initiates catalysis with a tyrosinederived dihydroxyphenylalanine radical

Elizabeth J. Blaesi, Gavin M. Palowitch, Kai Hu, Amelia J. Kim, Hannah R. Rose, Rahul Alapati, Marshall G. Lougee, Hee Jong Kim, Alexander T. Taguchi, Kong Ooi Tan, Tatiana N. Laremore, Robert G. Griffin, Carsten Krebs, Megan L. Matthews, Alexey Silakov, J. Martin Bollinger, Benjamin D. Allen, Amie K. Boal, 2018, Proceedings of the National Academy of Sciences of the United States of America on p. 10022-10027

Programmable Proton Conduction in Stretchable and Self-Healing Proteins

Abdon Pena-Francesch, Huihun Jung, Michael A. Hickner, Madhusudan Tyagi, Benjamin D. Allen, Melik C. Demirel, 2018, Chemistry of Materials on p. 898-905

Programmable molecular composites of tandem proteins with graphene oxide for efficient bimorph actuators

Mert Vural, Yu Lei, Abdon Pena-Francesch, Huihun Jung, Benjamin Allen, Mauricio Terrones, Melik C. Demirel, 2017, Carbon on p. 404-412

Ultrafast laser-probing spectroscopy for studying molecular structure of protein aggregates

Huihun Jung, Chester J. Szwejkowski, Abdon Pena-Francesch, John A. Tomko, Benjamin Allen, Şahin Kaya Özdemir, Patrick Hopkins, Melik C. Demirel, 2017, Analyst on p. 1434-1441

Visualizing the reaction cycle in an Iron(II)- and 2-(Oxo)-glutarate-dependent hydroxylase

Andrew J. Mitchell, Noah P. Dunham, Ryan J. Martinie, Jonathan A. Bergman, Christopher J. Pollock, Kai Hu, Benjamin D. Allen, Wei Chen Chang, Alexey Silakov, Joseph M. Bollinger, Jr., Carsten Krebs, Amie Kathleen Boal, 2017, Journal of the American Chemical Society on p. 13830-13836

Generation of longer emission wavelength red fluorescent proteins using computationally designed libraries

Roberto A. Chica, Matthew M. Moore, Benjamin D. Allen, Stephen L. Mayo, 2010, Proceedings of the National Academy of Sciences of the United States of America on p. 20257-20262

Experimental library screening demonstrates the successful application of computational protein design to large structural ensembles

Benjamin D. Allen, Alex Nisthal, Stephen L. Mayo, 2010, Proceedings of the National Academy of Sciences of the United States of America on p. 19838-19843

An efficient algorithm for multistate protein design based on faster

Benjamin D. Allen, Stephen L. Mayo, 2010, Journal of Computational Chemistry on p. 904-916

Most-Cited Papers

Generation of longer emission wavelength red fluorescent proteins using computationally designed libraries

Roberto A. Chica, Matthew M. Moore, Benjamin D. Allen, Stephen L. Mayo, 2010, Proceedings of the National Academy of Sciences of the United States of America on p. 20257-20262

Experimental library screening demonstrates the successful application of computational protein design to large structural ensembles

Benjamin D. Allen, Alex Nisthal, Stephen L. Mayo, 2010, Proceedings of the National Academy of Sciences of the United States of America on p. 19838-19843

An efficient algorithm for multistate protein design based on faster

Benjamin D. Allen, Stephen L. Mayo, 2010, Journal of Computational Chemistry on p. 904-916

Visualizing the reaction cycle in an Iron(II)- and 2-(Oxo)-glutarate-dependent hydroxylase

Andrew J. Mitchell, Noah P. Dunham, Ryan J. Martinie, Jonathan A. Bergman, Christopher J. Pollock, Kai Hu, Benjamin D. Allen, Wei Chen Chang, Alexey Silakov, Joseph M. Bollinger, Jr., Carsten Krebs, Amie Kathleen Boal, 2017, Journal of the American Chemical Society on p. 13830-13836

Programmable molecular composites of tandem proteins with graphene oxide for efficient bimorph actuators

Mert Vural, Yu Lei, Abdon Pena-Francesch, Huihun Jung, Benjamin Allen, Mauricio Terrones, Melik C. Demirel, 2017, Carbon on p. 404-412

Metal-free class Ie ribonucleotide reductase from pathogens initiates catalysis with a tyrosinederived dihydroxyphenylalanine radical

Elizabeth J. Blaesi, Gavin M. Palowitch, Kai Hu, Amelia J. Kim, Hannah R. Rose, Rahul Alapati, Marshall G. Lougee, Hee Jong Kim, Alexander T. Taguchi, Kong Ooi Tan, Tatiana N. Laremore, Robert G. Griffin, Carsten Krebs, Megan L. Matthews, Alexey Silakov, J. Martin Bollinger, Benjamin D. Allen, Amie K. Boal, 2018, Proceedings of the National Academy of Sciences of the United States of America on p. 10022-10027

Programmable Proton Conduction in Stretchable and Self-Healing Proteins

Abdon Pena-Francesch, Huihun Jung, Michael A. Hickner, Madhusudan Tyagi, Benjamin D. Allen, Melik C. Demirel, 2018, Chemistry of Materials on p. 898-905

Ultrafast laser-probing spectroscopy for studying molecular structure of protein aggregates

Huihun Jung, Chester J. Szwejkowski, Abdon Pena-Francesch, John A. Tomko, Benjamin Allen, Şahin Kaya Özdemir, Patrick Hopkins, Melik C. Demirel, 2017, Analyst on p. 1434-1441

Hydrogen Donation but not Abstraction by a Tyrosine (Y68) during Endoperoxide Installation by Verruculogen Synthase (FtmOx1)

Noah P. Dunham, José M. Del Río Pantoja, Bo Zhang, Lauren J. Rajakovich, Benjamin D. Allen, Carsten Krebs, Amie K. Boal, J. Martin Bollinger, 2019, Journal of the American Chemical Society on p. 9964-9979

Evidence for Modulation of Oxygen Rebound Rate in Control of Outcome by Iron(II)- And 2-Oxoglutarate-Dependent Oxygenases

Juan Pan, Eliott S. Wenger, Megan L. Matthews, Christopher J. Pollock, Minakshi Bhardwaj, Amelia J. Kim, Benjamin D. Allen, Robert B. Grossman, Carsten Krebs, J. Martin Bollinger, 2019, Journal of the American Chemical Society on p. 15153-15165