Edward O’Brien

Associate Professor of Chemistry

Edward O’Brien

Research Summary

Developing and applying Physical Bioinformatic techniques to measure rates of translation transcriptome-wide and their molecular origins as relates to fundamental biology and disease.

Graduate Students

Huck Affiliations

Publication Tags

Proteins Protein Folding Ribosomes Kinetics Tunnels Peptides Codon Folding Compaction Messenger Rna Fluorescence Elongation Escherichia Coli Protein Domains Reaction Kinetics Thermodynamics Molecules Proteome Experiments Stem Cells Entropy Translating Substrates Physics Temperature

Most Recent Papers

Identifying A- and P-site locations on ribosome-protected mRNA fragments using Integer Programming

Nabeel Ahmed, Pietro Sormanni, Prajwal Ciryam, Michele Vendruscolo, Christopher M. Dobson, Edward P. O’Brien, 2019, Scientific reports

Domain topology, stability, and translation speed determine mechanical force generation on the ribosome

Sarah E. Leininger, Fabio Trovato, Daniel A. Nissley, Edward P. O’Brien, 2019, Proceedings of the National Academy of Sciences of the United States of America on p. 5523-5532

Mechanochemistry in Translation

S. Leininger, C. Deutsch, Edward O'Brien, 2019, Biochem on p. 4657

Domain Topology, Stability, and Translation Speed Determine Co-Translational Folding Force Generation

S. Leininger, D. Nissley, F. Trovato, E. O'Brien, 2019, Proc. Natl. Acad. Sci. U.S.A. on p. 5523-5532

A Chemical Kinetic Basis for Measuring Initiation and Elongation Rates from Ribosome Profiling Data

A. Sharma, N. Ahmed, P. Sormani, P. Ciryam, E. O'Brien, 2019, PLoS Comp. Bio.

A chemical kinetic basis for measuring translation initiation and elongation rates from ribosome profiling data

Ajeet K. Sharma, Pietro Sormanni, Nabeel Ahmed, Prajwal Ciryam, Ulrike A. Friedrich, Günter Kramer, Edward P. O'Brien, 2019, PLoS computational biology

Erythromycin leads to differential protein expression through differences in electrostatic and dispersion interactions with nascent proteins

Hoang Linh Nguyen, Dang Lan Pham, Edward P. O'Brien, Jr., Mai Suan Li, 2018, Scientific reports

Structural origins of FRET-observed nascent chain compaction on the ribosome

Daniel A. Nissley, Edward P. O'Brien, Jr., 2018, Journal of Physical Chemistry B on p. 9927-9937

Kinetic and structural comparison of a protein’s cotranslational folding and refolding pathways

Avi J. Samelson, Eric Bolin, Shawn M. Costello, Ajeet K. Sharma, Edward P. O’Brien, Susan Marqusee, 2018, Science Advances

Origins of the Mechanochemical Coupling of Peptide Bond Formation to Protein Synthesis

Benjamin Fritch, Andrey Kosolapov, Phillip Hudson, Daniel A. Nissley, H. Lee Woodcock, Carol Deutsch, Edward P. O'Brien, 2018, Journal of the American Chemical Society on p. 5077-5087

Most-Cited Papers

Cotranslational Protein Folding inside the Ribosome Exit Tunnel

Ola B. Nilsson, Rickard Hedman, Jacopo Marino, Stephan Wickles, Lukas Bischoff, Magnus Johansson, Annika Müller-Lucks, Fabio Trovato, Joseph D. Puglisi, Edward P. O'Brien, Roland Beckmann, Gunnar von Heijne, 2015, Cell Reports on p. 1533-1540

New scenarios of protein folding can occur on the ribosome

Edward P. O'Brien, John Christodoulou, Michele Vendruscolo, Christopher M. Dobson, 2011, Journal of the American Chemical Society on p. 513-526

Prediction of variable translation rate effects on cotranslational protein folding

Edward P. O'Brien, Michele Vendruscolo, Christopher M. Dobson, 2012, Nature communications

Transient tertiary structure formation within the ribosome exit port

Edward P. O'Brien, Shang Te Danny Hsu, John Christodoulou, Michele Vendruscolo, Christopher M. Dobson, 2010, Journal of the American Chemical Society on p. 16928-16937

Collapse kinetics and chevron plots from simulations of denaturant-dependent folding of globular proteins

Zhenxing Liu, Govardhan Reddy, Edward P. O'Brien, D. Thirumalai, 2011, Proceedings of the National Academy of Sciences of the United States of America on p. 7787-7792

Trigger factor slows Co-translational folding through kinetic trapping while sterically protecting the nascent chain from aberrant cytosolic interactions

Edward P. O'Brien, John Christodoulou, Michele Vendruscolo, Christopher M. Dobson, 2012, Journal of the American Chemical Society on p. 10920-10932

Understanding the influence of codon translation rates on cotranslational protein folding

Edward P. O'Brien, Prajwal Ciryam, Michele Vendruscolo, Christopher M. Dobson, 2014, Accounts of Chemical Research on p. 1536-1544

In vivo translation rates can substantially delay the cotranslational folding of the Escherichia coli cytosolic proteome

Prajwal Ciryam, Richard I. Morimoto, Michele Vendruscolo, Christopher M. Dobson, Edward P. O'Brien, 2013, Proceedings of the National Academy of Sciences of the United States of America on p. E132-E140

Kinetic modelling indicates that fast-translating codons can coordinate cotranslational protein folding by avoiding misfolded intermediates

Edward P. O'brien, Michele Vendruscolo, Christopher M. Dobson, 2014, Nature communications

Profiling Ssb-Nascent Chain Interactions Reveals Principles of Hsp70-Assisted Folding

Kristina Döring, Nabeel Ahmed, Trine Riemer, Harsha Garadi Suresh, Yevhen Vainshtein, Markus Habich, Jan Riemer, Matthias P. Mayer, Edward P. O'Brien, Günter Kramer, Bernd Bukau, 2017, Cell on p. 298-311.e20