Researcher Profile

Researcher Profile

Edward P. O'Brien, Jr., PhD

Edward P. O'Brien, Jr., PhD

Assistant Professor, Chemistry
Scientific Program:Mechanisms of Carcinogenesis
Disease Teams:
Institute for CyberScience (ICS) - Co-hire
epo2@psu.edu

Research Interests

  • Proteins
  • Ribosomes
  • Protein Folding
  • Codon
  • Peptides
  • Molecular Models
  • Messenger RNA
  • Temperature
  • Urea
  • Proteome
  • Thermodynamics
  • Guanidine

Recent Publications

2019

Sharma, AK, Sormanni, P, Ahmed, N, Ciryam, P, Friedrich, UA, Kramer, G & O'Brien, Jr., EP 2019, 'A chemical kinetic basis for measuring translation initiation and elongation rates from ribosome profiling data', PLoS computational biology, vol. 15, no. 5, pp. e1007070. https://doi.org/10.1371/journal.pcbi.1007070
Leininger, SE, Trovato, F, Nissley, DA & O'Brien, Jr., EP 2019, 'Domain topology, stability, and translation speed determine mechanical force generation on the ribosome', Proceedings of the National Academy of Sciences of the United States of America, vol. 116, no. 12, pp. 5523-5532. https://doi.org/10.1073/pnas.1813003116
Ahmed, N, Sormanni, P, Ciryam, P, Vendruscolo, M, Dobson, CM & O'Brien, Jr., EP 2019, 'Identifying A- and P-site locations on ribosome-protected mRNA fragments using Integer Programming', Scientific reports, vol. 9, no. 1, 6256. https://doi.org/10.1038/s41598-019-42348-x
Leininger, SE, Narayan, K, Deutsch, C & O'Brien, Jr., EP 2019, 'Mechanochemistry in Translation', Biochemistry. https://doi.org/10.1021/acs.biochem.9b00260

2018

Sharma, AK, Ahmed, N & O'Brien, Jr., EP 2018, 'Determinants of translation speed are randomly distributed across transcripts resulting in a universal scaling of protein synthesis times', Physical Review E, vol. 97, no. 2, 022409. https://doi.org/10.1103/PhysRevE.97.022409
Nguyen, HL, Pham, DL, O'Brien, Jr., EP & Li, MS 2018, 'Erythromycin leads to differential protein expression through differences in electrostatic and dispersion interactions with nascent proteins', Scientific reports, vol. 8, no. 1, 6460. https://doi.org/10.1038/s41598-018-24344-9
Samelson, AJ, Bolin, E, Costello, SM, Sharma, AK, O'Brien, Jr., EP & Marqusee, S 2018, 'Kinetic and structural comparison of a protein’s cotranslational folding and refolding pathways', Science Advances, vol. 4, no. 5, eaas9098. https://doi.org/10.1126/sciadv.aas9098
Sharma, AK & O'Brien, Jr., EP 2018, 'Non-equilibrium coupling of protein structure and function to translation–elongation kinetics', Current Opinion in Structural Biology, vol. 49, pp. 94-103. https://doi.org/10.1016/j.sbi.2018.01.005
Fritch, B, Kosolapov, A, Hudson, P, Nissley, DA, Woodcock, HL, Deutsch, C & O'Brien, Jr., EP 2018, 'Origins of the Mechanochemical Coupling of Peptide Bond Formation to Protein Synthesis', Journal of the American Chemical Society, vol. 140, no. 15, pp. 5077-5087. https://doi.org/10.1021/jacs.7b11044
Nissley, DA & O'Brien, Jr., EP 2018, 'Structural Origins of FRET-Observed Nascent Chain Compaction on the Ribosome', Journal of Physical Chemistry B, vol. 122, no. 43, pp. 9927-9937. https://doi.org/10.1021/acs.jpcb.8b07726

2017

Trovato, F & O'Brien, Jr., EP 2017, 'Fast Protein Translation Can Promote Co- and Posttranslational Folding of Misfolding-Prone Proteins', Biophysical journal, vol. 112, no. 9, pp. 1807-1819. https://doi.org/10.1016/j.bpj.2017.04.006
Sharma, AK & O'Brien, Jr., EP 2017, 'Increasing Protein Production Rates Can Decrease the Rate at Which Functional Protein is Produced and Their Steady-State Levels', Journal of Physical Chemistry B, vol. 121, no. 28, pp. 6775-6784. https://doi.org/10.1021/acs.jpcb.7b01700
Döring, K, Ahmed, N, Riemer, T, Suresh, HG, Vainshtein, Y, Habich, M, Riemer, J, Mayer, MP, O'Brien, Jr., EP, Kramer, G & Bukau, B 2017, 'Profiling Ssb-Nascent Chain Interactions Reveals Principles of Hsp70-Assisted Folding', Cell, vol. 170, no. 2, pp. 298-311.e20. https://doi.org/10.1016/j.cell.2017.06.038

2016

Nissley, DA, Sharma, AK, Ahmed, N, Friedrich, UA, Kramer, G, Bukau, B & O'Brien, Jr., EP 2016, 'Accurate prediction of cellular co-translational folding indicates proteins can switch from post- to co-translational folding', Nature communications, vol. 7, 10341. https://doi.org/10.1038/ncomms10341
Nissley, DA & O'Brien, Jr., EP 2016, 'Altered co-translational processing plays a role in huntington’s pathogenesis-A hypothesis', Frontiers in Molecular Neuroscience, vol. 9, no. JUL, 54. https://doi.org/10.3389/fnmol.2016.00054
Trovato, F & O'Brien, Jr., EP 2016, 'Insights into Cotranslational Nascent Protein Behavior from Computer Simulations', Annual Review of Biophysics, vol. 45, pp. 345-369. https://doi.org/10.1146/annurev-biophys-070915-094153
Sharma, AK, Bukau, B & O'Brien, Jr., EP 2016, 'Physical Origins of Codon Positions That Strongly Influence Cotranslational Folding: A Framework for Controlling Nascent-Protein Folding', Journal of the American Chemical Society, vol. 138, no. 4, pp. 1180-1195. https://doi.org/10.1021/jacs.5b08145

2015

Nilsson, OB, Hedman, R, Marino, J, Wickles, S, Bischoff, L, Johansson, M, Müller-Lucks, A, Trovato, F, Puglisi, JD, O'Brien, Jr., EP, Beckmann, R & von Heijne, G 2015, 'Cotranslational Protein Folding inside the Ribosome Exit Tunnel', Cell Reports, vol. 12, no. 10, pp. 1533-1540. https://doi.org/10.1016/j.celrep.2015.07.065
Caniparoli, L & O'Brien, Jr., EP 2015, 'Modeling the effect of codon translation rates on co-translational protein folding mechanisms of arbitrary complexity', Journal of Chemical Physics, vol. 142, no. 14, 145102. https://doi.org/10.1063/1.4916914

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