Confinement effects on the kinetics and thermodynamics of protein dimerization
暂无分享,去创建一个
Wei Wang | Yaakov Levy | P G Wolynes | P. Wolynes | Wei Wang | E. Trizac | Y. Levy | Wei-Xin Xu | E Trizac | Weixin Xu
[1] Allen P. Minton,et al. Cell biology: Join the crowd , 2003, Nature.
[2] R. Sauer,et al. Equilibrium dissociation and unfolding of the Arc repressor dimer. , 1989, Biochemistry.
[3] P. Gennes. Scaling Concepts in Polymer Physics , 1979 .
[4] A. Tamura,et al. The entropy cost of protein association. , 1997, Journal of molecular biology.
[5] D Thirumalai,et al. Ribosome exit tunnel can entropically stabilize alpha-helices. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[6] A. Verkman,et al. Crowding effects on diffusion in solutions and cells. , 2008, Annual review of biophysics.
[7] B. Roux,et al. Calculation of absolute protein-ligand binding free energy from computer simulations. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[8] D Thirumalai,et al. Simulations of β-hairpin folding confined to spherical pores using distributed computing , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[9] Guy Ziv,et al. Ribosome exit tunnel can entropically stabilize α-helices , 2005 .
[10] Vijay S Pande,et al. Protein folding under confinement: A role for solvent , 2007, Proceedings of the National Academy of Sciences.
[11] S. Zimmerman,et al. Estimation of macromolecule concentrations and excluded volume effects for the cytoplasm of Escherichia coli. , 1991, Journal of molecular biology.
[12] H. Gaub,et al. Intermolecular forces and energies between ligands and receptors. , 1994, Science.
[13] R. Sauer,et al. P22 Arc repressor: folding kinetics of a single-domain, dimeric protein. , 1994, Biochemistry.
[14] Huan‐Xiang Zhou,et al. Macromolecular crowding and confinement: biochemical, biophysical, and potential physiological consequences. , 2008, Annual review of biophysics.
[15] Polymer Chains in Confined Spaces and Flow-Injection Problems: Some Remarks , 2005, cond-mat/0506803.
[16] Shoji Takada,et al. How protein thermodynamics and folding mechanisms are altered by the chaperonin cage: Molecular simulations , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[17] R. Sauer,et al. Equilibrium stability and sub-millisecond refolding of a designed single-chain Arc repressor. , 1996, Biochemistry.
[18] R. Ellis. Macromolecular crowding : obvious but underappreciated , 2022 .
[19] J. Mccammon,et al. Brownian dynamics simulation of diffusion‐influenced bimolecular reactions , 1984 .
[20] R. Sauer,et al. Barriers to protein folding: formation of buried polar interactions is a slow step in acquisition of structure. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[21] A. Minton. Implications of macromolecular crowding for protein assembly. , 2000, Current opinion in structural biology.
[22] S. Takada. Go-ing for the prediction of protein folding mechanisms. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[23] Dmitri K. Klimov,et al. Caging helps proteins fold , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[24] J. Onuchic,et al. Folding funnels and frustration in off-lattice minimalist protein landscapes. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[25] N Vaidehi,et al. Stabilization of coiled-coil peptide domains by introduction of trifluoroleucine. , 2001, Biochemistry.
[26] D. Thirumalai,et al. Molecular crowding enhances native state stability and refolding rates of globular proteins. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[27] Peter G Wolynes,et al. Protein topology determines binding mechanism. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[28] Yaakov Levy,et al. Simulations of proteins with inhomogeneous degrees of freedom: The effect of thermostats , 2008, J. Comput. Chem..
[29] Robert B. Best,et al. Thermodynamics and kinetics of protein folding under confinement , 2008, Proceedings of the National Academy of Sciences.
[30] T. Terwilliger,et al. Genetic fusion of subunits of a dimeric protein substantially enhances its stability and rate of folding. , 1993, Proceedings of the National Academy of Sciences of the United States of America.
[31] D. Thirumalai,et al. Kinetics and thermodynamics of folding of a de novo designed four-helix bundle protein. , 1996, Journal of molecular biology.
[32] Erik Luijten,et al. Self-avoiding flexible polymers under spherical confinement. , 2006, Nano letters.
[33] Peter G Wolynes,et al. A survey of flexible protein binding mechanisms and their transition states using native topology based energy landscapes. , 2005, Journal of molecular biology.
[34] R. Kaptein,et al. Structure of Arc represser in solution: evidence for a family of β-sheet DMA-binding proteins , 1990, Nature.
[35] J. Matthews,et al. The power of two: protein dimerization in biology. , 2004, Trends in biochemical sciences.
[36] Jun Wang,et al. Folding behavior of chaperonin‐mediated substrate protein , 2005, Proteins.
[37] J. Onuchic,et al. Topological and energetic factors: what determines the structural details of the transition state ensemble and "en-route" intermediates for protein folding? An investigation for small globular proteins. , 2000, Journal of molecular biology.