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 Nucleotides Emulsions Bioreactors Acids Enzymes Dna Messenger Rna Metals Viruses Hepatitis Delta Virus Molecular Dynamics Magnesium Liposomes Polyanions Diphosphates Lewis Acids Proteins Crystal Structure Rna Folding Molecular Dynamics Simulation Catalytic Domain

Most Recent Papers

Tissue-specific changes in the RNA structurome mediate salinity response in Arabidopsis

David Tack, Zhao Su, Yunqing Yu, Philip Bevilacqua, Sarah Assmann, 2020, RNA on p. rna--072850

MRNA structural elements immediately upstream of the start codon dictate dependence upon eIF4A helicase activity

Joseph A. Waldron, David C. Tack, Laura E. Ritchey, Sarah L. Gillen, Ania Wilczynska, Ernest Turro, Philip C. Bevilacqua, Sarah M. Assmann, Martin Bushell, John Le Quesne, 2019, Genome biology on p. 300

Small molecule rescue and glycosidic conformational analysis of the twister ribozyme

Kyle J. Messina, Ryszard Kierzek, Matthew A. Tracey, Philip C. Bevilacqua, 2019, Biochemistry on p. 4857-4868

Probing RNA structure in vivo.

D Mitchell, 3rd, Sarah Assmann, Philip Bevilacqua, 2019, Current opinion in structural biology on p. 151-158

Single-nucleotide control of tRNA folding cooperativity under near-cellular conditions

Kathleen A. Leamy, Ryota Yamagami, Neela H. Yennawar, Philip C. Bevilacqua, 2019, Proceedings of the National Academy of Sciences of the United States of America on p. 23075-23082

Cellular Concentrations of Nucleotide Diphosphate-Chelated Magnesium Ions Accelerate Catalysis by RNA and DNA Enzymes

Ryota Yamagami, Ruochuan Huang, Philip C. Bevilacqua, 2019, Biochemistry on p. 3971-3979

Polyanion-Assisted Ribozyme Catalysis Inside Complex Coacervates

Raghav R. Poudyal, Christine D. Keating, Philip C. Bevilacqua, 2019, ACS chemical biology on p. 1243-1248

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 Babitzke, Sarah M. Assmann, Philip C. Bevilacqua, 2019, RNA on p. 147-157

In Vivo Genome-Wide RNA Structure Probing with Structure-seq.

L Ritchey, Z Su, Sarah Assmann, Philip Bevilacqua, 2019, Methods in molecular biology (Clifton, N.J.) on p. 305-341

Most-Cited 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 M. 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

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

RNA G-Quadruplexes in the model plant species Arabidopsis thaliana

Melissa A. Mullen, Kalee J. Olson, Paul Dallaire, Franois Major, Sarah Mary Assmann, Philip C. Bevilacqua, 2010, Nucleic acids research on p. 8149-8163