Tobin Sosnick to Thermodynamics
This is a "connection" page, showing publications Tobin Sosnick has written about Thermodynamics.
Connection Strength
3.422
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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 Sep 26; 134(38):15929-36.
Score: 0.354
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Practical Tips for the Application of HDX-MS to Membrane Proteins, Biomolecular Condensates, and Weak Protein Binders. J Am Soc Mass Spectrom. 2025 Aug 06; 36(8):1575-1587.
Score: 0.214
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Collapse and Protein Folding: Should We Be Surprised That Biothermodynamics Works So Well? Annu Rev Biophys. 2025 05; 54(1):17-34.
Score: 0.207
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HDX-MS finds that partial unfolding with sequential domain activation controls condensation of a cellular stress marker. Proc Natl Acad Sci U S A. 2024 Mar 26; 121(13):e2321606121.
Score: 0.197
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Contribution of hydrogen bonding to protein stability estimated from isotope effects. Biochemistry. 2002 Feb 19; 41(7):2120-9.
Score: 0.170
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Engineered Metal-Binding Sites to Probe Protein Folding Transition States: Psi Analysis. Methods Mol Biol. 2022; 2376:31-63.
Score: 0.169
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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: 0.137
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Accurate calculation of side chain packing and free energy with applications to protein molecular dynamics. PLoS Comput Biol. 2018 12; 14(12):e1006342.
Score: 0.137
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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: 0.135
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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: 0.113
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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: 0.107
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Protein vivisection reveals elusive intermediates in folding. J Mol Biol. 2010 Apr 02; 397(3):777-88.
Score: 0.074
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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: 0.070
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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: 0.066
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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: 0.058
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Characterizing the protein folding transition state using psi analysis. Chem Rev. 2006 May; 106(5):1862-76.
Score: 0.057
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Structure of a folding intermediate reveals the interplay between core and peripheral elements in RNA folding. J Mol Biol. 2005 Sep 23; 352(3):712-22.
Score: 0.055
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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: 0.052
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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: 0.051
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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: 0.049
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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: 0.049
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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: 0.045
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Getting hotter with RNA. Nat Struct Biol. 2002 Nov; 9(11):795-6.
Score: 0.045
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Dynamics of hydrogen bond desolvation in protein folding. J Mol Biol. 2002 Aug 23; 321(4):659-75.
Score: 0.044
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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: 0.043
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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: 0.042
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Characterization of tertiary folding of RNA by circular dichroism and urea. Curr Protoc Nucleic Acid Chem. 2001 May; Chapter 11:Unit 11.5.
Score: 0.040
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The thermodynamic origin of the stability of a thermophilic ribozyme. Proc Natl Acad Sci U S A. 2001 Apr 10; 98(8):4355-60.
Score: 0.040
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Distinguishing between two-state and three-state models for ubiquitin folding. Biochemistry. 2000 Sep 26; 39(38):11696-701.
Score: 0.039
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Mg2+-dependent compaction and folding of yeast tRNAPhe and the catalytic domain of the B. subtilis RNase P RNA determined by small-angle X-ray scattering. Biochemistry. 2000 Sep 12; 39(36):11107-13.
Score: 0.038
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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: 0.037
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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: 0.037
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Mg2+-dependent folding of a large ribozyme without kinetic traps. Nat Struct Biol. 1999 Dec; 6(12):1091-5.
Score: 0.036
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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: 0.036
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Pathway modulation, circular permutation and rapid RNA folding under kinetic control. J Mol Biol. 1999 Feb 26; 286(3):721-31.
Score: 0.035
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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: 0.035
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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: 0.030
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Protein minimization: downsizing through mutation. Proc Natl Acad Sci U S A. 1996 Jun 11; 93(12):5680-1.
Score: 0.029
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Molecular collapse: the rate-limiting step in two-state cytochrome c folding. Proteins. 1996 Apr; 24(4):413-26.
Score: 0.028
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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: 0.028
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Ionic strength independence of charge distributions in solvation of biomolecules. J Chem Phys. 2014 Dec 14; 141(22):22D503.
Score: 0.026
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Denatured states of ribonuclease A have compact dimensions and residual secondary structure. Biochemistry. 1992 Sep 08; 31(35):8329-35.
Score: 0.022
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Principal determinants leading to transition state formation of a protein-protein complex, orientation trumps side-chain interactions. Proc Natl Acad Sci U S A. 2009 Feb 24; 106(8):2559-64.
Score: 0.017
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Single-molecule nonequilibrium periodic Mg2+-concentration jump experiments reveal details of the early folding pathways of a large RNA. Proc Natl Acad Sci U S A. 2008 May 06; 105(18):6602-7.
Score: 0.016
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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: 0.015
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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: 0.015
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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: 0.014
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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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Stepwise conversion of a mesophilic to a thermophilic ribozyme. J Mol Biol. 2003 Jul 04; 330(2):177-83.
Score: 0.012
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Large-scale context in protein folding: villin headpiece. Biochemistry. 2003 Jan 28; 42(3):664-71.
Score: 0.011
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Modular construction of a tertiary RNA structure: the specificity domain of the Bacillus subtilis RNase P RNA. Biochemistry. 2001 Sep 18; 40(37):11202-10.
Score: 0.010
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Altering the intermediate in the equilibrium folding of unmodified yeast tRNAPhe with monovalent and divalent cations. Biochemistry. 2001 Mar 27; 40(12):3629-38.
Score: 0.010
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Applicability of urea in the thermodynamic analysis of secondary and tertiary RNA folding. Biochemistry. 1999 Dec 21; 38(51):16831-9.
Score: 0.009
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Protein folding intermediates: native-state hydrogen exchange. Science. 1995 Jul 14; 269(5221):192-7.
Score: 0.007