E James Petersson

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 39

Top Topics

Fluorescent Probe

Molecular Dynamics

Top Venues

Chemical science

ACS chemical biology

Journal of the American Chemical Society

The journal of physical chemistry. B

This page only lists publications with an associated author ORCID identifier.

Publications

Michael B Cory, Allen Li, Christina M Hurley, Peter J Carman, Ruth A Pumroy, Zachary M Hostetler, Ryann M Perez, Yarra Venkatesh, Xinning Li, Kushol Gupta, E James Petersson, Rahul M Kohli
The LexA-RecA* structure reveals a cryptic lock-and-key mechanism for SOS activation. Nature structural & molecular biology (2024)
Yarra Venkatesh, Nicholas P Marotta, Virginia M-Y Lee, E James Petersson
Highly tunable bimane-based fluorescent probes: design, synthesis, and application as a selective amyloid binding dye. Chemical science 15 (16) (2024)
Stephen A Crane, Felipe Jiménez-Ángeles, Yiming Wang, Luis E Ortuno Macias, Jason G Marmorstein, Jiayi Deng, Mehdi Molaei, E James Petersson, Ravi Radhakrishnan, de la Fuente-Nunez Cesar, Monica Olvera de la Cruz, Raymond S Tu, Charles Maldarelli, Ivan J Dmochowski, Kathleen J Stebe
Interfacial rheology of lanthanide binding peptide surfactants at the air-water interface. Soft matter (2024)
Yarra Venkatesh, Nicholas P Marotta, Virginia M-Y Lee, E James Petersson
Highly tunable bimane-based fluorescent probes: design, synthesis, and application as a selective amyloid binding dye. Chemical science 15 (16) (2024)
Buyan Pan, Sarah Gardner, Kollin Schultz, Ryann M Perez, Sunbin Deng, Marie Shimogawa, Kohei Sato, Elizabeth Rhoades, Ronen Marmorstein, E James Petersson
Semi-synthetic CoA-α-Synuclein Constructs Trap N-terminal Acetyltransferase NatB for Binding Mechanism Studies. bioRxiv : the preprint server for biology (2023)
Buyan Pan, Sarah M Gardner, Kollin Schultz, Ryann M Perez, Sunbin Deng, Marie Shimogawa, Kohei Sato, Elizabeth Rhoades, Ronen Marmorstein, E James Petersson
Semi-Synthetic CoA-α-Synuclein Constructs Trap N-Terminal Acetyltransferase NatB for Binding Mechanism Studies. Journal of the American Chemical Society (2023)
Ryann Perez, Xinning Li, Sam G Giannakoulias, E James Petersson
AggBERT: Best in Class Prediction of Hexapeptide Amyloidogenesis with a Semi-Supervised ProtBERT Model. Journal of chemical information and modeling (2023)
Jennifer Ramirez, Samantha X Pancoe, Elizabeth Rhoades, E James Petersson
The Effects of Lipids on α-Synuclein Aggregation In Vitro. Biomolecules 13 (10) (2023)
Michael B Cory, Chloe M Jones, Kyle D Shaffer, Yarra Venkatesh, Sam Giannakoulias, Ryann M Perez, Marshall G Lougee, Eshe Hummingbird, Vinayak V Pagar, Christina M Hurley, Allen Li, Robert H Mach, Rahul M Kohli, E James Petersson
FRETing About the Details: Case studies in the use of a genetically encoded fluorescent amino acid for distance-dependent energy transfer. Protein science : a publication of the Protein Society (2023)
Xinning Li, Ryann Perez, Sam Giannakoulias, E James Petersson
Proteins Need Extra Attention: Improving the Predictive Power of Protein Language Models on Mutational Datasets with Hint Tokens. bioRxiv : the preprint server for biology (2023)
Joomyung V Jun, David M Chenoweth, E James Petersson
Rational design of small molecule fluorescent probes for biological applications. Organic & biomolecular chemistry 18 (30) (2022)
Buyan Pan, Marie Shimogawa, Jun Zhao, Elizabeth Rhoades, Anna Kashina, E James Petersson
Cysteine-Based Mimic of Arginylation Reproduces Neuroprotective Effects of the Authentic Post-Translational Modification on α-Synuclein. Journal of the American Chemical Society 144 (17) (2022)
Kristen E Fiore, Martijn J Patist, Sam G Giannakoulias, Cheng-Hsin Huang, Hitesh Verma, Bhavesh Khatri, Richard P Cheng, Jayanta Chatterjee, E James Petersson
Structural impact of thioamide incorporation into a β-hairpin. RSC chemical biology 3 (5) (2022)
Michael B Cory, Allen Li, Christina M Hurley, Zachary M Hostetler, Yarra Venkatesh, Chloe M Jones, E James Petersson, Rahul M Kohli
Engineered RecA Constructs Reveal the Minimal SOS Activation Complex. Biochemistry (2022)
Marshall G Lougee, Vinayak Vishnu Pagar, Hee Jong Kim, Samantha X Pancoe, W Kit Chia, Robert H Mach, Benjamin A Garcia, E James Petersson
Harnessing the intrinsic photochemistry of isoxazoles for the development of chemoproteomic crosslinking methods. Chemical communications (Cambridge, England) 58 (65) (2022)
Buyan Pan, Joo Hyung Park, Trudy Ramlall, David Eliezer, Elizabeth Rhoades, E James Petersson
Chemoenzymatic Semi-synthesis Enables Efficient Production of Isotopically Labeled α-Synuclein with Site-Specific Tyrosine Phosphorylation. Chembiochem : a European journal of chemical biology 22 (8) (2021)
Chloe M Jones, D Miklos Szantai-Kis, Robert J Blizzard, Mika Munari, Yarra Venkatesh, Tiberiu S Mihaila, Alex J Eddins, Ryan A Mehl, William N Zagotta, Sharona E Gordon, E James Petersson
Genetic encoding of a highly photostable, long lifetime fluorescent amino acid for imaging in mammalian cells. Chemical science 12 (36) (2021)
Nicholas P Marotta, Jahan Ara, Norihito Uemura, Marshall G Lougee, Emily S Meymand, Bin Zhang, E James Petersson, John Q Trojanowski, Virginia M Y Lee
Alpha-synuclein from patient Lewy bodies exhibits distinct pathological activity that can be propagated in vitro. Acta neuropathologica communications 9 (1) (2021)
William N Zagotta, Brandon S Sim, Anthony K Nhim, Marium M Raza, Eric Gb Evans, Yarra Venkatesh, Chloe M Jones, Ryan A Mehl, E James Petersson, Sharona E Gordon
An improved fluorescent noncanonical amino acid for measuring conformational distributions using time-resolved transition metal ion FRET. eLife 10 (2021)
Hoang Anh T Phan, Sam G Giannakoulias, Taylor M Barrett, Chunxiao Liu, E James Petersson
Rational design of thioamide peptides as selective inhibitors of cysteine protease cathepsin L. Chemical science 12 (32) (2021)
Jimin Yoon, John J Ferrie, E James Petersson
Improved Modeling of Thioamide FRET Quenching by Including Conformational Restriction and Coulomb Coupling. The journal of physical chemistry. B 124 (47) (2020)
Taylor M Barrett, Xing S Chen, Chunxiao Liu, Sam Giannakoulias, Hoang Anh T Phan, Jieliang Wang, E Keith Keenan, Richard J Karpowicz, E James Petersson
Studies of Thioamide Effects on Serine Protease Activity Enable Two-Site Stabilization of Cancer Imaging Peptides. ACS chemical biology 15 (3) (2020)
John J Ferrie, E James Petersson
A Unified De Novo Approach for Predicting the Structures of Ordered and Disordered Proteins. The journal of physical chemistry. B 124 (27) (2020)
Buyan Pan, Naoki Kamo, Marie Shimogawa, Yun Huang, Anna Kashina, Elizabeth Rhoades, E James Petersson
Effects of Glutamate Arginylation on α-Synuclein: Studying an Unusual Post-Translational Modification through Semisynthesis. Journal of the American Chemical Society 142 (52) (2020)
Zsofia Lengyel-Zhand, John J Ferrie, Bieneke Janssen, Chia-Ju Hsieh, Thomas Graham, Kui-Ying Xu, Conor M Haney, Virginia M-Y Lee, John Q Trojanowski, E James Petersson, Robert H Mach
Synthesis and characterization of high affinity fluorogenic α-synuclein probes. Chemical communications (Cambridge, England) 56 (24) (2020)
John J Ferrie, Zsofia Lengyel-Zhand, Bieneke Janssen, Marshall G Lougee, Sam G Giannakoulias, Chia-Ju Hsieh, Vinayak Vishnu Pagar, Chi-Chang Weng, Hong Xu, Thomas J A Graham, Virginia M-Y Lee, Robert H Mach, E James Petersson
Identification of a nanomolar affinity α-synuclein fibril imaging probe by ultra-high throughput in silico screening. Chemical science 11 (47) (2020)
Taylor M Barrett, Xing S Chen, Chunxiao Liu, Sam G Giannakoulias, Hoang Anh T Phan, Jieliang Wang, E Keith Keenan, Richard J Karpowicz, E James Petersson
Correction to Studies of Thioamide Effects on Serine Protease Activity Enable Two-Site Stabilization of Cancer Imaging Peptides. ACS chemical biology 15 (9) (2020)
Buyan Pan, Elizabeth Rhoades, E James Petersson
Chemoenzymatic Semisynthesis of Phosphorylated α-Synuclein Enables Identification of a Bidirectional Effect on Fibril Formation. ACS chemical biology 15 (3) (2020)
Sam G Giannakoulias, Sumant R Shringari, Chunxiao Liu, Hoang Anh T Phan, Taylor M Barrett, John J Ferrie, E James Petersson
Rosetta Machine Learning Models Accurately Classify Positional Effects of Thioamides on Proteolysis. The journal of physical chemistry. B 124 (37) (2020)
Zachary M Hostetler, Michael B Cory, Chloe M Jones, E James Petersson, Rahul M Kohli
The Kinetic and Molecular Basis for the Interaction of LexA and Activated RecA Revealed by a Fluorescent Amino Acid Probe. ACS chemical biology 15 (5) (2020)
D Miklos Robkis, Eileen M Hoang, Pengse Po, Carol J Deutsch, E James Petersson
Side-chain thioamides as fluorescence quenching probes. Biopolymers 112 (1) (2020)
Chunxiao Liu, Taylor M Barrett, Xing Chen, John J Ferrie, E James Petersson
Fluorescent Probes for Studying Thioamide Positional Effects on Proteolysis Reveal Insight into Resistance to Cysteine Proteases. Chembiochem : a European journal of chemical biology 20 (16) (2019)
Buyan Pan, E James Petersson
A PARP-1 Feed-Forward Mechanism To Accelerate α-Synuclein Toxicity in Parkinson's Disease. Biochemistry 58 (7) (2019)
Joomyung V Jun, Conor M Haney, Richard J Karpowicz, Sam Giannakoulias, Virginia M Y Lee, E James Petersson, David M Chenoweth
A "Clickable" Photoconvertible Small Fluorescent Molecule as a Minimalist Probe for Tracking Individual Biomolecule Complexes. Journal of the American Chemical Society 141 (5) (2019)
Nilkamal Mahanta, D Miklos Szantai-Kis, E James Petersson, Douglas A Mitchell
Biosynthesis and Chemical Applications of Thioamides. ACS chemical biology 14 (2) (2019)
Zachary M Hostetler, John J Ferrie, Marc R Bornstein, Itthipol Sungwienwong, E James Petersson, Rahul M Kohli
Systematic Evaluation of Soluble Protein Expression Using a Fluorescent Unnatural Amino Acid Reveals No Reliable Predictors of Tolerability. ACS chemical biology 13 (10) (2018)
Brandon A Vara, Xingpin Li, Simon Berritt, Christopher R Walters, E James Petersson, Gary A Molander
Scalable thioarylation of unprotected peptides and biomolecules under Ni/photoredox catalysis. Chemical science 9 (2) (2017)
Christopher R Walters, D Miklos Szantai-Kis, Yitao Zhang, Zachary E Reinert, W Seth Horne, David M Chenoweth, E James Petersson
The effects of thioamide backbone substitution on protein stability: a study in α-helical, β-sheet, and polyproline II helical contexts. Chemical science 8 (4) (2017)
Xing Chen, Elizabeth G Mietlicki-Baase, Taylor M Barrett, Lauren E McGrath, Kieran Koch-Laskowski, John J Ferrie, Matthew R Hayes, E James Petersson
Thioamide Substitution Selectively Modulates Proteolysis and Receptor Activity of Therapeutic Peptide Hormones. Journal of the American Chemical Society 139 (46) (2017)