Publications by authors named "Benjamin D Allen"

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Impact of biomanufacturing protein fibers on achieving sustainable development.
Benjamin D Allen, Baljit Ghotra, Birgit Kosan, Philipp Köhler, Marcus Krieg

Proc Natl Acad Sci U S A· November 2025

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A Structurally Divergent Class Ia Ribonucleotide Reductase from a Tick-Borne Pathogen.
Olivia M Peduzzi, Gavin M Palowitch, John P Gajewski, Kai Hu, Alyssa Wheeler, Benjamin D Allen

Biochemistry· September 2025

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Optimized Substrate Positioning Enables Switches in the C-H Cleavage Site and Reaction Outcome in the Hydroxylation-Epoxidation Sequence Catalyzed by Hyoscyamine 6β-Hydroxylase.
Eliott S Wenger, Ryan J Martinie, Richiro Ushimaru, Christopher J Pollock, Debangsu Sil, Benjamin D Allen

J Am Chem Soc· September 2024

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Self-Assembly of Topologically Networked Protein-TiCT MXene Composites.
Mert Vural, Haoyue Zhu, Abdon Pena-Francesch, Huihun Jung, Benjamin D Allen

ACS Nano· June 2020

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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, Benjamin D Allen

J Am Chem Soc· September 2019

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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

J Am Chem Soc· June 2019

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ProtaBank: A repository for protein design and engineering data.
Connie Y Wang, Paul M Chang, Marie L Ary, Benjamin D Allen, Roberto A Chica

Protein Sci· March 2019

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Tunable thermal transport and reversible thermal conductivity switching in topologically networked bio-inspired materials.
John A Tomko, Abdon Pena-Francesch, Huihun Jung, Madhusudan Tyagi, Benjamin D Allen

Nat Nanotechnol· October 2018

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Metal-free class Ie ribonucleotide reductase from pathogens initiates catalysis with a tyrosine-derived dihydroxyphenylalanine radical.
Elizabeth J Blaesi, Gavin M Palowitch, Kai Hu, Amelia J Kim, Hannah R Rose, Benjamin D Allen

Proc Natl Acad Sci U S A· October 2018

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ProtaBank: A repository for protein design and engineering data.
Connie Y Wang, Paul M Chang, Marie L Ary, Benjamin D Allen, Roberto A Chica

Protein Sci· June 2018

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Mechanical Properties of Tandem-Repeat Proteins Are Governed by Network Defects.
Abdon Pena-Francesch, Huihun Jung, Mo Segad, Ralph H Colby, Benjamin D Allen

ACS Biomater Sci Eng· March 2018

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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, Benjamin D Allen

J Am Chem Soc· October 2017

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A Pd-Catalyzed Synthesis of Functionalized Piperidines.
Benjamin D W Allen, Matthew J Connolly, Joseph P A Harrity

Chemistry· September 2016

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Molecular tandem repeat strategy for elucidating mechanical properties of high-strength proteins.
Huihun Jung, Abdon Pena-Francesch, Alham Saadat, Aswathy Sebastian, Dong Hwan Kim, Benjamin D Allen

Proc Natl Acad Sci U S A· June 2016

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Mediastinal abscess formation after EUS-guided FNA in patients with sarcoidosis.
Benjamin D Allen, Ian Penman

Gastrointest Endosc· November 2012

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Experimental library screening demonstrates the successful application of computational protein design to large structural ensembles.
Benjamin D Allen, Alex Nisthal, Stephen L Mayo

Proc Natl Acad Sci U S A· November 2010

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Generation of longer emission wavelength red fluorescent proteins using computationally designed libraries.
Roberto A Chica, Matthew M Moore, Benjamin D Allen, Stephen L Mayo

Proc Natl Acad Sci U S A· November 2010

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An efficient algorithm for multistate protein design based on FASTER.
Benjamin D Allen, Stephen L Mayo

J Comput Chem· April 2010

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Conformational analysis of a covalently cross-linked Watson-Crick base pair model.
Erik A Jensen, Benjamin D Allen, Yoshito Kishi, Daniel J O'Leary

Bioorg Med Chem Lett· November 2008

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Computational protein design promises to revolutionize protein engineering.
Oscar Alvizo, Benjamin D Allen, Stephen L Mayo

Biotechniques· January 2007

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Combinatorial methods for small-molecule placement in computational enzyme design.
Jonathan Kyle Lassila, Heidi K Privett, Benjamin D Allen, Stephen L Mayo

Proc Natl Acad Sci U S A· November 2006

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Dramatic performance enhancements for the FASTER optimization algorithm.
Benjamin D Allen, Stephen L Mayo

J Comput Chem· July 2006

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An isosparteine derivative for stereochemical assignment of stereogenic (chiral) methyl groups using tritium NMR: theory and experiment.
Benjamin D Allen, Jean-Christophe Cintrat, Nicolas Faucher, Patrick Berthault, Bernard Rousseau

J Am Chem Soc· January 2005

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Fomenting proton anisochronicity in the CH2D group.
Benjamin D Allen, Daniel J O'Leary

J Am Chem Soc· July 2003

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Flexor tenolysis using a free suture.
Gregory I Bain, Benjamin D Allen, Anthony C Berger

Tech Hand Up Extrem Surg· June 2003

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