Contribution of hydrophobic interactions to protein stability.

No abstract is available for this paper.

• Publication year

  2011

• Venue

  Journal of Molecular Biology

• Publication date

  2011-05-06

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1016/j.jmb.2011.02.053PMID 21377472PMCID PMC3086625
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Membrane protein folding: how important are hydrogen bonds?

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• An unlocking/relocking barrier in conformational fluctuations of villin headpiece subdomain

  2010cited by this paper
• Lessons from the lysozyme of phage T4

  2010cited by this paper
• Increasing protein stability: Importance of ΔCp and the denatured state

  2010cited by this paper
• Urea denatured state ensembles contain extensive secondary structure that is increased in hydrophobic proteins

  2010cited by this paper
• Analysis of core packing in a cooperatively folded miniature protein: the ultrafast folding villin headpiece helical subdomain.

  2009cited by this paper
• Increasing protein stability by improving beta‐turns

  2009cited by this paper
• Similar energetic contributions of packing in the core of membrane and water-soluble proteins.

  2009influential reference
• Probing the folding transition state structure of the villin headpiece subdomain via side chain and backbone mutagenesis.

  2009influential reference
• Localized Thermodynamic Coupling between Hydrogen Bonding and Microenvironment Polarity Substantially Stabilizes Proteins

  2009cited by this paper
• UNDERSTANDING FORCES THAT CONTRIBUTE TO PROTEIN STABILITY: APPLICATION FOR INCREASING PROTEIN STABILITY

  2009cited by this paper
• Energetics of protein hydrogen bonds

  2009cited by this paper
• Chemical, physical, and theoretical kinetics of an ultrafast folding protein

  2008cited by this paper
• Modest stabilization by most hydrogen-bonded side-chain interactions in membrane proteins

  2008cited by this paper
• Folding free-energy landscape of villin headpiece subdomain from molecular dynamics simulations

  2007cited by this paper
• Universality and diversity of folding mechanics for three-helix bundle proteins

  2007cited by this paper
• Anatomy of energetic changes accompanying urea-induced protein denaturation

  2007cited by this paper
• Increasing protein conformational stability by optimizing beta-turn sequence.

  2007cited by this paper
• High apparent dielectric constant inside a protein reflects structural reorganization coupled to the ionization of an internal Asp.

  2007cited by this paper
• Increasing protein conformational stability by optimizing β-turn sequence

  2007cited by this paper
• Hydrogen bonding markedly reduces the pK of buried carboxyl groups in proteins.

  2006cited by this paper
• Energetics of aliphatic deletions in protein cores

  2006cited by this paper
• Asp79 makes a large, unfavorable contribution to the stability of RNase Sa.

  2005cited by this paper
• High-resolution x-ray crystal structures of the villin headpiece subdomain, an ultrafast folding protein.

  2005cited by this paper
• Do all backbone polar groups in proteins form hydrogen bonds?

  2005cited by this paper
• Hydrogen bonding increases packing density in the protein interior

  2005cited by this paper
• Backbone-Backbone H-Bonds Make Context-Dependent Contributions to Protein Folding Kinetics and Thermodynamics: Lessons from Amide-to-Ester Mutations.

  2005cited by this paper
• Protein structure, stability and solubility in water and other solvents.

  2004cited by this paper
• Thermodynamics of core hydrophobicity and packing in the hyperthermophile proteins Sac7d and Sso7d.

  2004cited by this paper
• Side-chain contributions to membrane protein structure and stability.

  2004cited by this paper
• The Contribution of Polar Group Burial to Protein Stability Is Strongly Context-dependent*

  2003cited by this paper
• Announcing the worldwide Protein Data Bank

  2003cited by this paper
• The largest protein observed to fold by two-state kinetic mechanism does not obey contact-order correlation.

  2003cited by this paper
• The role of aromatic residues in the hydrophobic core of the villin headpiece subdomain

  2002cited by this paper
• Increasing the precision of comparative models with YASARA NOVA—a self‐parameterizing force field

  2002cited by this paper
• Crystal Structure of Lyme Disease Variable Surface Antigen VlsE of Borrelia burgdorferi *

  2002cited by this paper
• Thermodynamic consequences of burial of polar and non-polar amino acid residues in the protein interior.

  2002cited by this paper
• Packing is a key selection factor in the evolution of protein hydrophobic cores.

  2001cited by this paper
• Tyrosine hydrogen bonds make a large contribution to protein stability.

  2001cited by this paper
• Polar group burial contributes more to protein stability than nonpolar group burial.

  2001cited by this paper
• Are proteins well-packed?

  2001cited by this paper
• Hydrophobic core manipulations in ribonuclease T1.

  2001influential reference
• Single surface stabilizer

  2000cited by this paper
• Thermodynamic and structural studies of cavity formation in proteins suggest that loss of packing interactions rather than the hydrophobic effect dominates the observed energetics.

  2000cited by this paper
• Two proteins with the same structure respond very differently to mutation: the role of plasticity in protein stability.

  2000cited by this paper
• Protein packing: dependence on protein size, secondary structure and amino acid composition.

  2000cited by this paper
• Buried charged surface in proteins.

  2000influential reference
• Increasing protein stability by altering long‐range coulombic interactions

  1999cited by this paper
• Conformational stability and thermodynamics of folding of ribonucleases Sa, Sa2 and Sa3.

  1998cited by this paper
• A general rule for the relationship between hydrophobic effect and conformational stability of a protein: stability and structure of a series of hydrophobic mutants of human lysozyme.

  1998cited by this paper
• Context-dependent nature of destabilizing mutations on the stability of FKBP12.

  1998cited by this paper
• Contribution of a conserved asparagine to the conformational stability of ribonucleases Sa, Ba, and T1.

  1998cited by this paper
• The response of T4 lysozyme to large‐to‐small substitutions within the core and its relation to the hydrophobic effect

  1998cited by this paper
• Heterogeneity of packing: Structural approach

  1998cited by this paper
• Purification of ribonucleases Sa, Sa2, and Sa3 after expression in Escherichia coli.

  1997cited by this paper
• Hydrophobicity regained.

  1997cited by this paper
• Hydrophobicity regained: Hydrophobicity regained

  1997cited by this paper
• How protein chemists learned about the hydrophobic factor

  1997cited by this paper
• Entropy in protein folding and in protein-protein interactions.

  1997cited by this paper
• Helix propensities are identical in proteins and peptides.

  1997cited by this paper
• Solvation: how to obtain microscopic energies from partitioning and solvation experiments.

  1997cited by this paper
• Modeling unfolded states of proteins and peptides. II. Backbone solvent accessibility.

  1997cited by this paper
• A thermostable 35-residue subdomain within villin headpiece.

  1996influential reference
• Solvation energies of amino acid side chains and backbone in a family of host-guest pentapeptides.

  1996cited by this paper
• Hydrogen bonding stabilizes globular proteins.

  1996cited by this paper
• Docking enzyme‐inhibitor complexes using a preference‐based free‐energy surface

  1996cited by this paper
• The magnitude of the backbone conformational entropy change in protein folding

  1996cited by this paper
• Forces contributing to the conformational stability of proteins

  1996cited by this paper
• On the entropy of protein folding

  1996cited by this paper
• First-principles calculation of the folding free energy of a three-helix bundle protein.

  1995cited by this paper
• Evaluating contribution of hydrogen bonding and hydrophobic bonding to protein folding.

  1995cited by this paper
• Modeling unfolded states of peptides and proteins.

  1995influential reference
• Volume changes on protein folding.

  1994cited by this paper
• Coupling of local folding to site-specific binding of proteins to DNA.

  1994cited by this paper
• Satisfying hydrogen bonding potential in proteins.

  1994cited by this paper
• Lost hydrogen bonds and buried surface area: rationalising stability in globular proteins

  1993cited by this paper
• Hydrogen bonding, hydrophobicity, packing, and protein folding.

  1993cited by this paper
• Effect of cavity-creating mutations in the hydrophobic core of chymotrypsin inhibitor 2.

  1993cited by this paper
• Contribution of hydrogen bonding to the conformational stability of ribonuclease T1.

  1992cited by this paper
• Contribution of the hydrophobic effect to globular protein stability.

  1992cited by this paper
• Hydrogen bonding in globular proteins.

  1992cited by this paper
• The folding of an enzyme. II. Substructure of barnase and the contribution of different interactions to protein stability.

  1992cited by this paper
• Atomic solvation parameters applied to molecular dynamics of proteins in solution

  1992cited by this paper
• Response of a protein structure to cavity-creating mutations and its relation to the hydrophobic effect.

  1992cited by this paper
• Energetics of repacking a protein interior.

  1991cited by this paper
• Contribution of the hydrophobic effect to protein stability: analysis based on simulations of the Ile-96----Ala mutation in barnase.

  1991cited by this paper
• Repacking protein interiors.

  1991cited by this paper
• pH dependence of the urea and guanidine hydrochloride denaturation of ribonuclease A and ribonuclease T1.

  1990cited by this paper
• Contributions of the large hydrophobic amino acids to the stability of staphylococcal nuclease.

  1990cited by this paper
• Dominant forces in protein folding.

  1990cited by this paper
• Energetics of complementary side-chain packing in a protein hydrophobic core.

  1989cited by this paper
• Conformational stability and activity of ribonuclease T1 with zero, one, and two intact disulfide bonds.

  1988cited by this paper
• Comparing the polarities of the amino acids: side-chain distribution coefficients between the vapor phase, cyclohexane, 1-octanol, and neutral aqueous solution

  1988cited by this paper
• Contribution of hydrophobic interactions to protein stability

  1988cited by this paper
• The hydrogen bond in molecular recognition

  1987cited by this paper
• Dependence of conformational stability on hydrophobicity of the amino acid residue in a series of variant proteins substituted at a unique position of tryptophan synthase alpha subunit.

  1987cited by this paper
• The role of solvent polarity in the free energy of transfer of amino acid side chains from water to organic solvents.

  1986cited by this paper
• Determination and analysis of urea and guanidine hydrochloride denaturation curves.

  1986cited by this paper
• Protein densities.

  1979cited by this paper
• The solubility of amino acids and two glycine peptides in aqueous ethanol and dioxane solutions. Establishment of a hydrophobicity scale.

  1971cited by this paper

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