Tobin R. Sosnick to Protein Folding
This is a "connection" page, showing publications Tobin R. Sosnick has written about Protein Folding.
Connection Strength
15.236
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How hydrophobicity, side chains, and salt affect the dimensions of disordered proteins. Protein Sci. 2024 May; 33(5):e4986.
Score: 0.840
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Engineered Metal-Binding Sites to Probe Protein Folding Transition States: Psi Analysis. Methods Mol Biol. 2022; 2376:31-63.
Score: 0.715
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On the Interpretation of Force-Induced Unfolding Studies of Membrane Proteins Using Fast Simulations. Biophys J. 2019 10 15; 117(8):1429-1441.
Score: 0.610
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Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water. Science. 2017 10 13; 358(6360):238-241.
Score: 0.534
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Cooperative folding near the downhill limit determined with amino acid resolution by hydrogen exchange. Proc Natl Acad Sci U S A. 2016 Apr 26; 113(17):4747-52.
Score: 0.481
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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 Jul 07; 112(27):8302-7.
Score: 0.455
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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 Oct 28; 111(43):15396-401.
Score: 0.434
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Revealing what gets buried first in protein folding. Proc Natl Acad Sci U S A. 2013 Oct 15; 110(42):16704-5.
Score: 0.404
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De novo prediction of protein folding pathways and structure using the principle of sequential stabilization. Proc Natl Acad Sci U S A. 2012 Oct 23; 109(43):17442-7.
Score: 0.377
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The folding transition state of protein L is extensive with nonnative interactions (and not small and polarized). J Mol Biol. 2012 Jul 13; 420(3):220-34.
Score: 0.365
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Biochemistry. How proteins fold. Science. 2011 Oct 28; 334(6055):464-5.
Score: 0.353
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The folding of single domain proteins--have we reached a consensus? Curr Opin Struct Biol. 2011 Feb; 21(1):12-24.
Score: 0.332
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Protein vivisection reveals elusive intermediates in folding. J Mol Biol. 2010 Apr 02; 397(3):777-88.
Score: 0.313
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Metal binding kinetics of bi-histidine sites used in psi analysis: evidence of high-energy protein folding intermediates. Biochemistry. 2009 Apr 07; 48(13):2950-9.
Score: 0.296
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Psi-constrained simulations of protein folding transition states: implications for calculating. J Mol Biol. 2009 Mar 06; 386(4):920-8.
Score: 0.294
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Quantifying the structural requirements of the folding transition state of protein A and other systems. J Mol Biol. 2008 Sep 19; 381(5):1362-81.
Score: 0.280
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Kinetic barriers and the role of topology in protein and RNA folding. Protein Sci. 2008 Aug; 17(8):1308-18.
Score: 0.278
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Intramolecular cross-linking evaluated as a structural probe of the protein folding transition state. Biochemistry. 2007 Dec 04; 46(48):13711-9.
Score: 0.268
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Folding of a universal ribozyme: the ribonuclease P RNA. Q Rev Biophys. 2007 May; 40(2):113-61.
Score: 0.267
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Characterizing protein folding transition States using Psi-analysis. Methods Mol Biol. 2007; 350:83-104.
Score: 0.253
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Small proteins fold through transition states with native-like topologies. J Mol Biol. 2006 Aug 25; 361(4):755-70.
Score: 0.244
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Characterizing the protein folding transition state using psi analysis. Chem Rev. 2006 May; 106(5):1862-76.
Score: 0.241
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Differences in the folding transition state of ubiquitin indicated by phi and psi analyses. Proc Natl Acad Sci U S A. 2004 Dec 14; 101(50):17377-82.
Score: 0.219
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Barrier-limited, microsecond folding of a stable protein measured with hydrogen exchange: Implications for downhill folding. Proc Natl Acad Sci U S A. 2004 Nov 02; 101(44):15639-44.
Score: 0.217
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Comment on "Force-clamp spectroscopy monitors the folding trajectory of a single protein". Science. 2004 Oct 15; 306(5695):411; author reply 411.
Score: 0.217
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Fast folding of a helical protein initiated by the collision of unstructured chains. Proc Natl Acad Sci U S A. 2004 Sep 14; 101(37):13478-82.
Score: 0.215
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Early collapse is not an obligate step in protein folding. J Mol Biol. 2004 Apr 23; 338(2):369-82.
Score: 0.210
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Discerning the structure and energy of multiple transition states in protein folding using psi-analysis. J Mol Biol. 2004 Mar 19; 337(2):463-75.
Score: 0.208
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Investigations into sequence and conformational dependence of backbone entropy, inter-basin dynamics and the Flory isolated-pair hypothesis for peptides. J Mol Biol. 2003 Aug 15; 331(3):693-711.
Score: 0.200
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Factors That Control the Force Needed to Unfold a Membrane Protein in Silico Depend on the Mode of Denaturation. Int J Mol Sci. 2023 Jan 31; 24(3).
Score: 0.193
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Fast and slow intermediate accumulation and the initial barrier mechanism in protein folding. J Mol Biol. 2002 Nov 22; 324(2):359-71.
Score: 0.190
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Dynamics of hydrogen bond desolvation in protein folding. J Mol Biol. 2002 Aug 23; 321(4):659-75.
Score: 0.187
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HDX-MS performed on BtuB in E. coli outer membranes delineates the luminal domain's allostery and unfolding upon B12 and TonB binding. Proc Natl Acad Sci U S A. 2022 05 17; 119(20):e2119436119.
Score: 0.183
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Contribution of hydrogen bonding to protein stability estimated from isotope effects. Biochemistry. 2002 Feb 19; 41(7):2120-9.
Score: 0.180
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Engineered metal binding sites map the heterogeneous folding landscape of a coiled coil. Nat Struct Biol. 2001 Dec; 8(12):1042-7.
Score: 0.178
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Folding and misfolding of potassium channel monomers during assembly and tetramerization. Proc Natl Acad Sci U S A. 2021 08 24; 118(34).
Score: 0.174
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Distinguishing between two-state and three-state models for ubiquitin folding. Biochemistry. 2000 Sep 26; 39(38):11696-701.
Score: 0.164
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Water as a Good Solvent for Unfolded Proteins: Folding and Collapse are Fundamentally Different. J Mol Biol. 2020 04 17; 432(9):2882-2889.
Score: 0.157
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D/H amide kinetic isotope effects reveal when hydrogen bonds form during protein folding. Nat Struct Biol. 2000 Jan; 7(1):62-71.
Score: 0.156
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Folding of a large ribozyme during transcription and the effect of the elongation factor NusA. Proc Natl Acad Sci U S A. 1999 Aug 17; 96(17):9545-50.
Score: 0.152
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Commonly used FRET fluorophores promote collapse of an otherwise disordered protein. Proc Natl Acad Sci U S A. 2019 04 30; 116(18):8889-8894.
Score: 0.148
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Viscosity dependence of the folding kinetics of a dimeric and monomeric coiled coil. Biochemistry. 1999 Feb 23; 38(8):2601-9.
Score: 0.147
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Trajectory-based training enables protein simulations with accurate folding and Boltzmann ensembles in cpu-hours. PLoS Comput Biol. 2018 12; 14(12):e1006578.
Score: 0.145
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A Membrane Burial Potential with H-Bonds and Applications to Curved Membranes and Fast Simulations. Biophys J. 2018 11 20; 115(10):1872-1884.
Score: 0.143
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Trifluoroethanol promotes helix formation by destabilizing backbone exposure: desolvation rather than native hydrogen bonding defines the kinetic pathway of dimeric coiled coil folding. Biochemistry. 1998 Oct 13; 37(41):14613-22.
Score: 0.143
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Intermediates and kinetic traps in the folding of a large ribozyme revealed by circular dichroism and UV absorbance spectroscopies and catalytic activity. Nat Struct Biol. 1997 Nov; 4(11):931-8.
Score: 0.134
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Ultrafast signals in protein folding and the polypeptide contracted state. Proc Natl Acad Sci U S A. 1997 Aug 05; 94(16):8545-50.
Score: 0.132
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Hydrogen exchange: the modern legacy of Linderstrøm-Lang. Protein Sci. 1997 May; 6(5):1101-9.
Score: 0.129
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Aromatic claw: A new fold with high aromatic content that evades structural prediction. Protein Sci. 2017 02; 26(2):208-217.
Score: 0.125
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Molecular collapse: the rate-limiting step in two-state cytochrome c folding. Proteins. 1996 Apr; 24(4):413-26.
Score: 0.120
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The role of helix formation in the folding of a fully alpha-helical coiled coil. Proteins. 1996 Apr; 24(4):427-32.
Score: 0.120
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The barriers in protein folding. Nat Struct Biol. 1994 Mar; 1(3):149-56.
Score: 0.104
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Folding of a large protein at high structural resolution. Proc Natl Acad Sci U S A. 2013 Nov 19; 110(47):18898-903.
Score: 0.102
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Simplified protein models: predicting folding pathways and structure using amino acid sequences. Phys Rev Lett. 2013 Jul 12; 111(2):028103.
Score: 0.099
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A "Link-Psi" strategy using crosslinking indicates that the folding transition state of ubiquitin is not very malleable. Protein Sci. 2012 Jun; 21(6):819-27.
Score: 0.091
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Modeling large regions in proteins: applications to loops, termini, and folding. Protein Sci. 2012 Jan; 21(1):107-21.
Score: 0.089
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Protein structure prediction enhanced with evolutionary diversity: SPEED. Protein Sci. 2010 Mar; 19(3):520-34.
Score: 0.079
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Mimicking the folding pathway to improve homology-free protein structure prediction. Proc Natl Acad Sci U S A. 2009 Mar 10; 106(10):3734-9.
Score: 0.073
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The highly cooperative folding of small naturally occurring proteins is likely the result of natural selection. Cell. 2007 Feb 09; 128(3):613-24.
Score: 0.064
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Polypeptide motions are dominated by peptide group oscillations resulting from dihedral angle correlations between nearest neighbors. Biochemistry. 2007 Jan 23; 46(3):669-82.
Score: 0.063
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Fully reduced ribonuclease A does not expand at high denaturant concentration or temperature. J Mol Biol. 2007 Mar 30; 367(3):609-15.
Score: 0.063
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Methods for the accurate estimation of confidence intervals on protein folding phi-values. Protein Sci. 2006 Oct; 15(10):2257-64.
Score: 0.062
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Minimalist representations and the importance of nearest neighbor effects in protein folding simulations. J Mol Biol. 2006 Nov 03; 363(4):835-57.
Score: 0.062
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On the precision of experimentally determined protein folding rates and phi-values. Protein Sci. 2006 Mar; 15(3):553-63.
Score: 0.060
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Protein folding: defining a "standard" set of experimental conditions and a preliminary kinetic data set of two-state proteins. Protein Sci. 2005 Mar; 14(3):602-16.
Score: 0.055
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Large-scale context in protein folding: villin headpiece. Biochemistry. 2003 Jan 28; 42(3):664-71.
Score: 0.048
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Distinguishing foldable proteins from nonfolders: when and how do they differ? Proteins. 2002 Oct 01; 49(1):15-23.
Score: 0.047
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Entropic benefit of a cross-link in protein association. Proteins. 2002 Aug 01; 48(2):341-51.
Score: 0.047
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The rate-limiting step in the folding of a large ribozyme without kinetic traps. Proc Natl Acad Sci U S A. 2002 Jun 25; 99(13):8518-23.
Score: 0.046
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Understanding protein hydrogen bond formation with kinetic H/D amide isotope effects. Nat Struct Biol. 2002 Jun; 9(6):458-63.
Score: 0.046
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Lipid bilayer induces contraction of the denatured state ensemble of a helical-bundle membrane protein. Proc Natl Acad Sci U S A. 2022 01 04; 119(1).
Score: 0.045
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Properties of protein unfolded states suggest broad selection for expanded conformational ensembles. Proc Natl Acad Sci U S A. 2020 09 22; 117(38):23356-23364.
Score: 0.041
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A thermodynamic framework and cooperativity in the tertiary folding of a Mg2+-dependent ribozyme. Biochemistry. 1999 Dec 21; 38(51):16840-6.
Score: 0.039
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Transition state heterogeneity in GCN4 coiled coil folding studied by using multisite mutations and crosslinking. Proc Natl Acad Sci U S A. 1999 Sep 14; 96(19):10699-704.
Score: 0.038
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The burst phase in ribonuclease A folding and solvent dependence of the unfolded state. Nat Struct Biol. 1998 Oct; 5(10):882-4.
Score: 0.036
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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 02 28; 114(9):2241-2246.
Score: 0.032
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Introduction of a polar core into the de novo designed protein Top7. Protein Sci. 2016 07; 25(7):1299-307.
Score: 0.030
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Protein folding intermediates: native-state hydrogen exchange. Science. 1995 Jul 14; 269(5221):192-7.
Score: 0.029
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Random coil negative control reproduces the discrepancy between scattering and FRET measurements of denatured protein dimensions. Proc Natl Acad Sci U S A. 2015 May 26; 112(21):6631-6.
Score: 0.028
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Probing the folding transition state of ubiquitin mutants by temperature-jump-induced downhill unfolding. Biochemistry. 2008 Dec 30; 47(52):13870-7.
Score: 0.018
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Reduced C(beta) statistical potentials can outperform all-atom potentials in decoy identification. Protein Sci. 2007 Oct; 16(10):2123-39.
Score: 0.017
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PII structure in the model peptides for unfolded proteins: studies on ubiquitin fragments and several alanine-rich peptides containing QQQ, SSS, FFF, and VVV. Proteins. 2006 May 01; 63(2):312-21.
Score: 0.015
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Statistical coil model of the unfolded state: resolving the reconciliation problem. Proc Natl Acad Sci U S A. 2005 Sep 13; 102(37):13099-104.
Score: 0.014
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Random-coil behavior and the dimensions of chemically unfolded proteins. Proc Natl Acad Sci U S A. 2004 Aug 24; 101(34):12491-6.
Score: 0.013
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Single-molecule studies highlight conformational heterogeneity in the early folding steps of a large ribozyme. Proc Natl Acad Sci U S A. 2004 Jan 13; 101(2):534-9.
Score: 0.013
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Mechanisms and uses of hydrogen exchange. Curr Opin Struct Biol. 1996 Feb; 6(1):18-23.
Score: 0.007