Philip Bevilacqua

Co-Director, Center for RNA Molecular Biology; Distinguished Professor of Chemistry and Biochemistry & Molecular Biology

Philip Bevilacqua

Research Summary

RNA folding in vivo and genome-wide; RNA regulation of gene expression; Ribozyme Mechanism; roles RNA may have played in the emergence of life on early earth

Huck Affiliations

Links

Publication Tags

Rna Catalytic Rna Catalysis Ions Amino Acids Thermionic Emission Bioreactors Emulsions Viruses Metals Acids Magnesium Molecules Hepatitis Delta Virus Molecular Dynamics Lewis Acids Liposomes Proteins Crystal Structure Temperature Catalytic Domain Molecular Dynamics Simulation Base Pairing U12 Small Nuclear Rna Hot Temperature

Most Recent Papers

Template-directed RNA polymerization and enhanced ribozyme catalysis inside membraneless compartments formed by coacervates

Raghav R. Poudyal, Rebecca M. Guth-Metzler, Andrew J. Veenis, Erica A. Frankel, Christine Dolan Keating, Philip C. Bevilacqua, 2019, Nature communications

Design of highly active double-pseudoknotted ribozymes

Ryota Yamagami, Mohammad Kayedkhordeh, David H. Mathews, Philip C. Bevilacqua, 2019, Nucleic acids research on p. 29-42

In vivo RNA structural probing of uracil and guanine base-pairing by 1-ethyl-3-(3-dimethylaminopropyl) carbodiimide (EDC)

David Mitchell, Andrew J. Renda, Catherine A. Douds, Paul Lee Babitzke, Sarah Mary Assmann, Philip C. Bevilacqua, 2019, RNA on p. 147-157

Cellular conditions of weakly chelated magnesium ions strongly promote RNA stability and catalysis

Ryota Yamagami, Jamie L. Bingaman, Erica A. Frankel, Philip C. Bevilacqua, 2018, Nature communications

Genome-wide RNA structurome reprogramming by acute heat shock globally regulates mRNA abundance

Zhao Su, Yin Tang, Laura E. Ritchey, David Tack, Mengmeng Zhu, Philip C. Bevilacqua, Sarah Mary Assmann, 2018, Proceedings of the National Academy of Sciences of the United States of America on p. 12170-12175

Technique development for probing RNA structure in vivo and genome-wide

Philip C. Bevilacqua, Sarah Mary Assmann, 2018, Cold Spring Harbor Perspectives in Biology

Cellular Small Molecules Contribute to Twister Ribozyme Catalysis

Kyle J. Messina, Philip C. Bevilacqua, 2018, Journal of the American Chemical Society on p. 10578-10582

StructureFold2

David Tack, Yin Tang, Laura E. Ritchey, Sarah Mary Assmann, Philip C. Bevilacqua, 2018, Methods on p. 12-15

Molecular Mechanism for Folding Cooperativity of Functional RNAs in Living Organisms

Kathleen A. Leamy, Neela Yennawar, Philip C. Bevilacqua, 2018, Biochemistry on p. 2994-3002

Elucidation of Catalytic Strategies of Small Nucleolytic Ribozymes from Comparative Analysis of Active Sites

Daniel D. Seith, Jamie L. Bingaman, Andrew J. Veenis, Aileen C. Button, Philip C. Bevilacqua, 2018, ACS Catalysis on p. 314-327

High-Impact Papers

In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features

Yiliang Ding, Yin Tang, Chun Kit Kwok, Yu Zhang, Philip C. Bevilacqua, Sarah Mary Assmann, 2014, Nature on p. 696-700

Incorporation of pseudouridine into mRNA enhances translation by diminishing PKR activation

Bart R. Anderson, Hiromi Muramatsu, Subba R. Nallagatla, Philip C. Bevilacqua, Lauren H. Sansing, Drew Weissman, Katalin Karikó, 2010, Nucleic acids research on p. 5884-5892

RNA catalysis through compartmentalization

Christopher A. Strulson, Rosalynn C. Molden, Christine Dolan Keating, Philip C. Bevilacqua, 2012, Nature Chemistry on p. 941-946

A 1.9 Å crystal structure of the HDV ribozyme precleavage suggests both lewis acid and general acid mechanisms contribute to phosphodiester cleavage

Jui Hui Chen, Rieko Yajima, Durga M. Chadalavada, Elaine Chase, Philip C. Bevilacqua, Barbara L. Golden, 2010, Biochemistry on p. 6508-6518

Bioreactor droplets from liposome-stabilized all-aqueous emulsions

Daniel C. Dewey, Christopher A. Strulson, David N. Cacace, Philip C. Bevilacqua, Christine Dolan Keating, 2014, Nature communications

Determination of in vivo RNA structure in low-abundance transcripts

Chun Kit Kwok, Yiliang Ding, Yin Tang, Sarah Mary Assmann, Philip C. Bevilacqua, 2013, Nature communications

Charged nucleobases and their potential for RNA catalysis

Jennifer L. Wilcox, Amarpreet K. Ahluwalia, Philip C. Bevilacqua, 2011, Accounts of Chemical Research on p. 1270-1279

Metal binding motif in the active site of the HDV ribozyme binds divalent and monovalent ions

Narayanan Veeraraghavan, Abir Ganguly, Jui Hui Chen, Philip C. Bevilacqua, Sharon Hammes-Schiffer, Barbara L. Golden, 2011, Biochemistry on p. 2672-2682

RNA Dimerization Promotes PKR Dimerization and Activation

Laurie A. Heinicke, C. Jason Wong, Jeffrey Lary, Subba Rao Nallagatla, Amy Diegelman-Parente, Xiaofeng Zheng, James L. Cole, Philip C. Bevilacqua, 2009, Journal of Molecular Biology on p. 319-338

The nuclear magnetic resonance of CCCC RNA reveals a right-handed helix, and revised parameters for AMBER force field torsions improve structural predictions from molecular dynamics

Jason D. Tubbs, David E. Condon, Scott D. Kennedy, Melanie Hauser, Philip C. Bevilacqua, Douglas H. Turner, 2013, Biochemistry on p. 996-1010