ArticleProceedings of the National Academy of Sciences of the United States of America2023
Opinion: Protein folds vs. protein folding: Differing questions, different challenges.
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Article in Proceedings of the National Academy of Sciences of the United States of America, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 papers.
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48citing papers in PubMed
–field-weighted citation impact
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
48 citing papers in PubMed.
- Many Ways Out: Beyond the Two-State Model of Protein Unfolding.ACS omega · 2026Review
- Black-box data: a new paradigm for biomedicine in the AI era.Chemical science · 2026Review
- Proteins Inside the HSP60/HSP10 Fold Under a Constant Electric Field: Potential Implications for the Protein Folding Problem.International journal of molecular sciences · 2026Article
- Article
- Rapid estimation of protein folding pathways from sequence alone using AlphaFold2.Nature communications · 2025Article
- Computational methods for inertial microfluidics: recent advances and future perspectives.Microsystems & nanoengineering · 2025Review
- The Arch from the Stones: Understanding Protein Folding Energy Landscapes via Bioinspired Collective Variables.The journal of physical chemistry letters · 2025Article
- A Computational Perspective to Intermolecular Interactions and the Role of the Solvent on Regulating Protein Properties.Chemical reviews · 2025Review
- Conserved structural topologies in RNase A-like and trypsin-like serine proteases: a sequence-based folding analysis.BMC molecular and cell biology · 2025Article
- Direct comparison of the structural dynamics between spontaneous and ligand-induced folding of staphylococcal nuclease.Protein science : a publication of the Protein Society · 2025Article
- Statistical Thermodynamics of the Protein Ensemble: Mediating Function and Evolution.Annual review of biophysics · 2025Review
- Reaction Coordinates Are Optimal Channels of Energy Flow.Annual review of physical chemistry · 2025Review
- Proteins with alternative folds reveal blind spots in AlphaFold-based protein structure prediction.Current opinion in structural biology · 2025Review
- Viscoelasticity of a single poly-protein probed step-by-step during its mechanical unfolding and refolding under the force-clamp conditions.RSC advances · 2025Article
- Multimeric protein interaction and complex prediction: Structure, dynamics and function.Computational and structural biotechnology journal · 2025Review
- The Iconic α-Helix: From Pauling to the Present.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Heterogeneous folding landscapes and predetermined breaking points within a protein family.Protein science : a publication of the Protein Society · 2024Article
- Proteins with alternative folds reveal blind spots in AlphaFold-based protein structure prediction.ArXiv · 2024Article
- Atomistic simulations reveal impacts of missense mutations on the structure and function of SynGAP1.Briefings in bioinformatics · 2024Article
- Correlation of Solvent Interaction Analysis Signatures with Thermodynamic Properties and In Silico Calculations of the Structural Effects of Point Mutations in Two Proteins.International journal of molecular sciences · 2024Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
24 authors.
Shi-Jie ChenDepartment of Physics, Department of Biochemistry, and Institute for Data Science and Informatics, University of Missouri, Columbia, MO 65211.ORCID 0000-0002-8093-7244
Mubashir HassanThe Steve and Cindy Rasmussen Institute for Genomic Medicine, Nationwide Children's Hospital, Columbus, OH 43205.
Robert L JerniganBioinformatics and Computational Biology Program and Roy J. Carver Department of Biochemistry, Biophysics and Molecular Biology, Iowa State University, Ames, IA 50011.ORCID 0000-0003-0996-8360
Kejue JiaBioinformatics and Computational Biology Program and Roy J. Carver Department of Biochemistry, Biophysics and Molecular Biology Iowa State University, Ames, IA 50011.
Daisuke KiharaDepartment of Biological Sciences, Department of Computer Science Purdue University, West Lafayette, IN 79075.
Andrzej KloczkowskiDepartment of Pediatrics, The Steve and Cindy Rasmussen Institute for Genomic Medicine, Nationwide Children's Hospital, The Ohio State University, Columbus, OH 43205.
Sergei KotelnikovDepartment of Applied Mathematics and Statistics, Laufer Center for Physical and Quantitative Biology, Stony Brook University, Stony Brook, NY 11794.ORCID 0000-0001-9400-101X
Dima KozakovFrey Family Foundation, Department of Applied Mathematics and Statistics, Laufer Center for Physical and Quantitative Biology, Stony Brook University, Stony Brook, NY 11794.ORCID 0000-0003-0464-4500
Jie LiangRichard and Loan Hill Dept of Biomedical Engineering, University of Illinois at Chicago, Chicago, IL 60607.ORCID 0000-0002-2773-6427
Adam LiwoFaculty of Chemistry, University of Gdansk, Fahrenheit Union of Universities, ul. Wita Stwosza 63, Gdansk 80-308, Poland.
Silvina MatysiakFischell Department of Bioengineering, University of Maryland, College Park, MD 20742.
Jarek MellerUniversity of Cincinnati & Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229.
Cristian MichelettiSISSA - International School for Advanced Studies, Via Bonomea 265, Trieste I-34136, Italy.
Julie C MitchellOak Ridge National Laboratory, Oak Ridge, TN 37830.ORCID 0000-0002-5031-7343
Sayantan MondalDepartment of Chemistry, Boston University, Boston, MA 02215.
Ruth NussinovComputational Structural Biology Section, National Laboratory for Cancer Research in the Cancer Innovation Laboratory, National Cancer Institute, Frederick, MD 21702.
Kei-Ichi OkazakiResearch Center for Computational Science, Institute for Molecular Science, Okazaki, Aichi 444-8585, Japan.
Dzmitry PadhornyLaufer Center for Physical and Quantitative Biology, Stony Brook University, Stony Brook, NY 11794.
Jeffrey SkolnickSchool of Biological Sciences, Georgia Institute of Technology, Atlanta, GA 30332.
Tobin S SosnickDepartment of Biochemistry and Molecular Biology, University of Chicago, Chicago, IL 60637.ORCID 0000-0002-2871-7244
George StanDepartment of Chemistry, University of Cincinnati, Cincinnati, OH 45221.ORCID 0000-0003-1880-4173
Ilya VakserComputational Biology Program and Center for Computational Biology, Department of Molecular Biosciences, The University of Kansas, Lawrence, KS 66045.
Xiaoqin ZouDepartment of Physics and Astronomy, Department of Biochemistry, Dalton Cardiovascular Research Center, Institute for Data Science and Informatics, University of Missouri, Columbia, MO 65211.ORCID 0000-0003-0637-8648
George D RoseJenkins Department of Biophysics, Johns Hopkins University, Baltimore, MD 21218.ORCID 0000-0002-9185-2123
Funding
Kinetic studies of protein foldingR01GM055694 · NIGMS · UNIVERSITY OF CHICAGO · PI SOSNICK, TOBIN R · 2001 to 2022
$7.6MPurchase of a GPU cluster for deep learning applications in protein-protein interaction and supercomplex prediction and biochemical literature annotation.R35GM118039 · NIGMS · GEORGIA INSTITUTE OF TECHNOLOGY · PI JEFFREY SKOLNICK · 2016 to 2026
$5.8MModels and Algorithms for Biological Networks and Polymers: Stochastic Probability Landscape and Chromatin EnsemblesR35GM127084 · NIGMS · UNIVERSITY OF ILLINOIS AT CHICAGO · PI LIANG, JIE · 2018 to 2025
$3.7MNew methods for computational modeling of RNA structuresR35GM134919 · NIGMS · UNIVERSITY OF MISSOURI-COLUMBIA · PI SHI-JIE CHEN · 2020 to 2026
$3.3MStructure prediction and in silico screening of protein-peptide interactionsR35GM136409 · NIGMS · UNIVERSITY OF MISSOURI-COLUMBIA · PI XIAOQIN ZOU · 2020 to 2026
$2.9MNovel Use of Genome Information to Understand MutationsR01HG012117 · NHGRI · IOWA STATE UNIVERSITY · PI JERNIGAN, ROBERT L, KLOCZKOWSKI, ANDRZEJ · 2021 to 2025
$2.3MProtein Sequence MatchingR01GM127701 · NIGMS · IOWA STATE UNIVERSITY · PI JERNIGAN, ROBERT L, KLOCZKOWSKI, ANDRZEJ · 2018 to 2021
$1.4MSimulation of Multi-Protein systemsR01GM140098 · NIGMS · STATE UNIVERSITY NEW YORK STONY BROOK · PI KOZAKOV, DMYTRO · 2021 to 2024
$1.4MNHGRI NIH HHS R01 HG012117NIGMS NIH HHS R01 GM055694NIGMS NIH HHS R01 GM127701NIGMS NIH HHS R01 GM140098NIGMS NIH HHS R35 GM118039NIGMS NIH HHS R35 GM127084NIGMS NIH HHS R35 GM134919NIGMS NIH HHS R35 GM136409
Abstract
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Indexed as
Protein FoldingProteinsThermodynamicsProteins
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