Author details

Full Name

Tobin R Sosnick

Affiliation

Institute for Biophysical Dynamics, The University of Chicago

ORCID

Career Start Year

1990

Papers

163

H Index

Expertise

CM4AI Collaborator

Andrej Sali (CM4AI)

PMID	Paper Title	Journal Title	Published Year
36768981	Factors That Control the Force Needed to Unfold a Membrane Protein in Silico Depend on the Mode of Denaturation.	Int J Mol Sci	2023
37546789	An adaptive biomolecular condensation response is conserved across environmentally divergent species.	bioRxiv	2023
37731359	AlphaFold developers Demis Hassabis and John Jumper share the 2023 Albert Lasker Basic Medical Research Award.	J Clin Invest	2023
34845602	Engineered Metal-Binding Sites to Probe Protein Folding Transition States: Psi Analysis.	Methods Mol Biol	2022
35549554	HDX-MS performed on BtuB in <i>E. coli</i> outer membranes delineates the luminal domain's allostery and unfolding upon B12 and TonB binding.	Proc Natl Acad Sci U S A	2022
36040258	Development of in vivo HDX-MS with applications to a TonB-dependent transporter and other proteins.	Protein Sci	2022
35213808	Challenges and Advantages of Accounting for Backbone Flexibility in Prediction of Protein-Protein Complexes.	J Chem Theory Comput	2022
34969836	Lipid bilayer induces contraction of the denatured state ensemble of a helical-bundle membrane protein.	Proc Natl Acad Sci U S A	2022
34936354	Prediction and Validation of a Protein's Free Energy Surface Using Hydrogen Exchange and (Importantly) Its Denaturant Dependence.	J Chem Theory Comput	2022
34241272	Molecular dynamics study of water channels in natural and synthetic amyloid-Î² fibrils.	J Chem Phys	2021
34413192	Folding and misfolding of potassium channel monomers during assembly and tetramerization.	Proc Natl Acad Sci U S A	2021
32879005	Properties of protein unfolded states suggest broad selection for expanded conformational ensembles.	Proc Natl Acad Sci U S A	2020
31924782	Structural basis for adhesion G protein-coupled receptor Gpr126 function.	Nat Commun	2020
32044346	Water as a Good Solvent for Unfolded Proteins: Folding and Collapse are Fundamentally Different.	J Mol Biol	2020
30992378	Commonly used FRET fluorophores promote collapse of an otherwise disordered protein.	Proc Natl Acad Sci U S A	2019
31587831	On the Interpretation of Force-Induced Unfolding Studies of Membrane Proteins Using Fast Simulations.	Biophys J	2019
31459397	Helical Contributions Mediate Light-Activated Conformational Change in the LOV2 Domain of Avena sativa Phototropin 1.	ACS Omega	2019
30413241	A Membrane Burial Potential with H-Bonds and Applications to Curved Membranes and Fast Simulations.	Biophys J	2018
30166460	Response to Comment on "Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water".	Science	2018
30589846	Accurate calculation of side chain packing and free energy with applications to protein molecular dynamics.	PLoS Comput Biol	2018
30589834	Trajectory-based training enables protein simulations with accurate folding and Boltzmann ensembles in cpu-hours.	PLoS Comput Biol	2018
27750371	Aromatic claw: A new fold with high aromatic content that evades structural prediction.	Protein Sci	2017
28283059	Stress-Triggered Phase Separation Is an Adaptive, Evolutionarily Tuned Response.	Cell	2017
28193869	Perplexing cooperative folding and stability of a low-sequence complexity, polyproline 2 protein lacking a hydrophobic core.	Proc Natl Acad Sci U S A	2017
28193860	Investigations of human myosin VI targeting using optogenetically controlled cargo loading.	Proc Natl Acad Sci U S A	2017
29208709	Conserved salt-bridge competition triggered by phosphorylation regulates the protein interactome.	Proc Natl Acad Sci U S A	2017
29026044	Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water.	Science	2017
27615730	The Pentablock Amphiphilic Copolymer T1107 Prevents Aggregation of Denatured and Reduced Lysozyme.	Macromol Biosci	2017
27078098	Cooperative folding near the downhill limit determined with amino acid resolution by hydrogen exchange.	Proc Natl Acad Sci U S A	2016
27497583	Erratum: "Ionic strength independence of charge distributions in solvation of biomolecules" [J. Chem. Phys. 141, 22D503 (2014)].	J Chem Phys	2016
26873166	Introduction of a polar core into the de novo designed protein Top7.	Protein Sci	2016
25964362	Random coil negative control reproduces the discrepancy between scattering and FRET measurements of denatured protein dimensions.	Proc Natl Acad Sci U S A	2015
26100906	Even with nonnative interactions, the updated folding transition states of the homologs Proteins G & L are extensive and similar.	Proc Natl Acad Sci U S A	2015
24475227	Factors that control the chemistry of the LOV domain photocycle.	PLoS One	2014
25494774	Ionic strength independence of charge distributions in solvation of biomolecules.	J Chem Phys	2014
25313044	Loss of conformational entropy in protein folding calculated using realistic ensembles and its implications for NMR-based calculations.	Proc Natl Acad Sci U S A	2014
25349413	Benchmarking all-atom simulations using hydrogen exchange.	Proc Natl Acad Sci U S A	2014
23665222	Discovering RNA-protein interactome by using chemical context profiling of the RNA-protein interface.	Cell Rep	2013
24096579	Revealing what gets buried first in protein folding.	Proc Natl Acad Sci U S A	2013
24191053	Folding of a large protein at high structural resolution.	Proc Natl Acad Sci U S A	2013
23889448	Simplified protein models: predicting folding pathways and structure using amino acid sequences.	Phys Rev Lett	2013
24010668	A novel implicit solvent model for simulating the molecular dynamics of RNA.	Biophys J	2013
23972854	Investigating models of protein function and allostery with a widespread mutational analysis of a light-activated protein.	Biophys J	2013
22095743	Modeling large regions in proteins: applications to loops, termini, and folding.	Protein Sci	2012
23045636	De novo prediction of protein folding pathways and structure using the principle of sequential stabilization.	Proc Natl Acad Sci U S A	2012
22928488	Context and force field dependence of the loss of protein backbone entropy upon folding using realistic denatured and native state ensembles.	J Am Chem Soc	2012
22528473	A "Link-Psi" strategy using crosslinking indicates that the folding transition state of ubiquitin is not very malleable.	Protein Sci	2012
22522126	The folding transition state of protein L is extensive with nonnative interactions (and not small and polarized).	J Mol Biol	2012
22306460	Small-angle X-ray scattering and single-molecule FRET spectroscopy produce highly divergent views of the low-denaturant unfolded state.	J Mol Biol	2012
22393431	On docking, scoring and assessing protein-DNA complexes in a rigid-body framework.	PLoS One	2012

1 - 50 of 163

Ignacia Echeverria

University of California san francisco

Career Start Year 2010

Number of shared co-authors 2

Yanxin Liu

University of California san francisco

Career Start Year 2007

Number of shared co-authors 3

James S Fraser

University of California san francisco

Career Start Year 2006

Number of shared co-authors 10

Seung Joong Kim

Korea Advanced Institute of Science and Technology (KAIST)

Career Start Year 2006

Number of shared co-authors 4

Sanbo Qin

University of Illinois at Chicago

Career Start Year 2004

Number of shared co-authors 5

Riccardo Pellarin

CNRS UMR 5086 and Universite Claude Bernard Lyon 1

Career Start Year 2003

Number of shared co-authors 4

Peter L Freddolino

University of Michigan ann arbor

Career Start Year 2002

Number of shared co-authors 6

Henry van den Bedem

University of California San Francisco

Career Start Year 2002

Number of shared co-authors 3

Matteo Dal Peraro

Institute of Bioengineering

Career Start Year 2001

Number of shared co-authors 10

Lewyn Li

Dana-Farber Cancer Institute, Harvard Medical School

Career Start Year 2000

Number of shared co-authors 1

David E Shaw

Columbia University

Career Start Year 2000

Number of shared co-authors 8

Michael Feig

Michigan State University

Career Start Year 1998

Number of shared co-authors 2

Michele Vendruscolo

University of Cambridge

Career Start Year 1996

Number of shared co-authors 10

Jeffery G Saven

University of Pennsylvania

Career Start Year 1996

Number of shared co-authors 2

Ivet Bahar

Laufer Center for Physical and Quantitative Biology, Stony Brook University

Career Start Year 1994

Number of shared co-authors 2

Mark A Williams

Harwell Science & Innovation Campus

Career Start Year 1994

Number of shared co-authors 4

Gerhard Hummer

Max Planck Institute of Biophysics

Career Start Year 1994

Number of shared co-authors 8

Huan-Xiang Zhou

University of Illinois Chicago

Career Start Year 1993

Number of shared co-authors 7

Lorna J Smith

University of Oxford

Career Start Year 1991

Number of shared co-authors 1

Julie D Forman-Kay

Hospital for Sick Children

Career Start Year 1989

Number of shared co-authors 7

John F Hunt

Columbia University

Career Start Year 1986

Number of shared co-authors 17

Ruth Nussinov

Sackler School of Medicine, Tel Aviv University

Career Start Year 1980

Number of shared co-authors 9

Eugene I Shakhnovich

Harvard University

Career Start Year 1980

Number of shared co-authors 3

David A Case

Rutgers University

Career Start Year 1977

Number of shared co-authors 16

Charles L Brooks

University of Michigan ann arbor

Career Start Year 1974

Number of shared co-authors 4

Christopher M Dobson

University of Cambridge

Career Start Year 1973

Number of shared co-authors 2

Ron Elber

Institute for Computational Engineering and Science, University of Texas at Austin

Career Start Year 1969

Number of shared co-authors 4

Alan R Fersht

Medical Research Council Laboratory of Molecular Biology

Career Start Year 1967

Number of shared co-authors 5

David Eisenberg

university of california los angeles

Career Start Year 1963

Number of shared co-authors 4

Martin Karplus

Harvard University

Career Start Year 1959

Number of shared co-authors 8

row(s) 1 - 30 of 30

Karl F Freed

University of Chicago

Co-authored papers 39

Abhishek K Jha

Elucidata Corporation

Co-authored papers 9

Andres Colubri

University of Massachusetts Medical School

Co-authored papers 8

Jill Trewhella

The University of Sydney

Co-authored papers 6

R Stephen Berry

University of Chicago

Co-authored papers 5

Ingo Ruczinski

Co-authored papers 4

Jinbo Xu

Toyota Technological Institute at Chicago

Co-authored papers 4

Ariel Fern??ndez

University of Florida

Co-authored papers 3

Jian Peng

University of Illinois

Co-authored papers 3

David Baker

University of Washington

Co-authored papers 3

Alex Kentsis

Memorial Sloan-Kettering Cancer Center

Co-authored papers 3

Gaetano T Montelione

Rensselaer Polytechnic Institute

Co-authored papers 3

Min-Yi Shen

National Chung Hsing University

Co-authored papers 3

Andrej Sali (CM4AI)

University of California San Francisco

Co-authored papers 2

Sheng Wang

University of Texas at Arlington

Co-authored papers 2

William F DeGrado

Department of Pharmaceutical Chemistry, University of California san francisco

Co-authored papers 2

Lee Makowski

Co-authored papers 2

Andrzej Joachimiak

Center for Structural Biology of Infectious Diseases, University of Chicago

Co-authored papers 2

Michael Levitt

Stanford University

Co-authored papers 1

Stanley R Krystek

Bristol-Myers Squibb Pharmaceutical Research Institute

Co-authored papers 1

David Jones

The Francis Crick Institute

Co-authored papers 1

Steven E Brenner

University of California berkeley

Co-authored papers 1

Robert Landick

University of Wisconsin-Madison

Co-authored papers 1

Steven J Ludtke

Baylor College of Medicine

Co-authored papers 1

Barry Honig

Columbia University Irving Medical Center

Co-authored papers 1

John Moult

Institute for Bioscience and Biotechnology Research

Co-authored papers 1

Liangliang Sun

Michigan State University

Co-authored papers 1

Roland L Dunbrack

Fox Chase Cancer Center

Co-authored papers 1

Alan R Davidson

University of Toronto, University Avenue

Co-authored papers 1

Kevin H Gardner

CUNY Advanced Science Research Center

Co-authored papers 1

1 - 30

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