Literature DB >> 9336206

Differences in hydration structure near hydrophobic and hydrophilic amino acids.

T Head-Gordon1, J M Sorenson, A Pertsemlidis, R M Glaeser.   

Abstract

We use molecular dynamics to simulate recent neutron scattering experiments on aqueous solutions of N-acetyl-leucine-amide and N-acetyl-glutamine-amide, and break down the total scattering function into contributions from solute-solute, solute-water, water-water, and intramolecular correlations. We show that the shift of the main diffraction peak to smaller angle that is observed for leucine, but not for glutamine, is attributable primarily to alterations in water-water correlations relative to bulk. The perturbation of the water hydrogen-bonded network extends roughly two solvation layers from the hydrophobic side chain surface, and is characterized by a distribution of hydrogen bonded ring sizes that are more planar and are dominated by pentagons in particular than those near the hydrophilic side chain. The different structural organization of water near the hydrophobic solute that gives rise to the inward shift in the main neutron diffraction peak under ambient conditions may also provide insight into the same directional shift for pure liquid water as it is cooled and supercooled.

Entities:  

Mesh:

Substances:

Year:  1997        PMID: 9336206      PMCID: PMC1181111          DOI: 10.1016/S0006-3495(97)78241-9

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  11 in total

1.  Is water structure around hydrophobic groups clathrate-like?

Authors:  T Head-Gordon
Journal:  Proc Natl Acad Sci U S A       Date:  1995-08-29       Impact factor: 11.205

2.  Some factors in the interpretation of protein denaturation.

Authors:  W KAUZMANN
Journal:  Adv Protein Chem       Date:  1959

Review 3.  Dominant forces in protein folding.

Authors:  K A Dill
Journal:  Biochemistry       Date:  1990-08-07       Impact factor: 3.162

4.  Packing structures and transitions in liquids and solids.

Authors:  F H Stillinger; T A Weber
Journal:  Science       Date:  1984-09-07       Impact factor: 47.728

5.  Direct evidence for modified solvent structure within the hydration shell of a hydrophobic amino acid.

Authors:  A Pertsemlidis; A M Saxena; A K Soper; T Head-Gordon; R M Glaeser
Journal:  Proc Natl Acad Sci U S A       Date:  1996-10-01       Impact factor: 11.205

6.  Identification and characterization of the unfolding transition state of chymotrypsin inhibitor 2 by molecular dynamics simulations.

Authors:  A Li; V Daggett
Journal:  J Mol Biol       Date:  1996-03-29       Impact factor: 5.469

7.  Conformational analysis of the backbone-dependent rotamer preferences of protein sidechains.

Authors:  R L Dunbrack; M Karplus
Journal:  Nat Struct Biol       Date:  1994-05

8.  Molecular dynamics simulation of protein denaturation: solvation of the hydrophobic cores and secondary structure of barnase.

Authors:  A Caflisch; M Karplus
Journal:  Proc Natl Acad Sci U S A       Date:  1994-03-01       Impact factor: 11.205

9.  Protein unfolding pathways explored through molecular dynamics simulations.

Authors:  V Daggett; M Levitt
Journal:  J Mol Biol       Date:  1993-07-20       Impact factor: 5.469

10.  Water revisited.

Authors:  F H Stillinger
Journal:  Science       Date:  1980-07-25       Impact factor: 47.728

View more
  11 in total

1.  A physical approach to protein structure prediction.

Authors:  Silvia Crivelli; Elizabeth Eskow; Brett Bader; Vincent Lamberti; Richard Byrd; Robert Schnabel; Teresa Head-Gordon
Journal:  Biophys J       Date:  2002-01       Impact factor: 4.033

2.  Dehydration-driven solvent exposure of hydrophobic surfaces as a driving force in peptide folding.

Authors:  Isabella Daidone; Martin B Ulmschneider; Alfredo Di Nola; Andrea Amadei; Jeremy C Smith
Journal:  Proc Natl Acad Sci U S A       Date:  2007-09-19       Impact factor: 11.205

3.  Hydrophobe-water interactions: methane as a model.

Authors:  F Despa; R S Berry
Journal:  Biophys J       Date:  2008-08-01       Impact factor: 4.033

4.  Incorporating dipolar solvents with variable density in Poisson-Boltzmann electrostatics.

Authors:  Cyril Azuara; Henri Orland; Michael Bon; Patrice Koehl; Marc Delarue
Journal:  Biophys J       Date:  2008-09-26       Impact factor: 4.033

5.  Evidence for microscopic, long-range hydration forces for a hydrophobic amino acid.

Authors:  A Pertsemlidis; A K Soper; J M Sorenson; T Head-Gordon
Journal:  Proc Natl Acad Sci U S A       Date:  1999-01-19       Impact factor: 11.205

6.  Alteration of water structure by peptide clusters revealed by neutron scattering in the small-angle region (below 1 Å(-1)).

Authors:  Isabella Daidone; Claudio Iacobucci; Sylvia E McLain; Jeremy C Smith
Journal:  Biophys J       Date:  2012-10-02       Impact factor: 4.033

7.  Molecular view of water dynamics near model peptides.

Authors:  Daniela Russo; Rajesh K Murarka; John R D Copley; Teresa Head-Gordon
Journal:  J Phys Chem B       Date:  2005-07-07       Impact factor: 2.991

8.  The x-ray absorption spectroscopy model of solvation about sulfur in aqueous L-cysteine.

Authors:  Ritimukta Sarangi; Patrick Frank; Maurizio Benfatto; Silvia Morante; Velia Minicozzi; Britt Hedman; Keith O Hodgson
Journal:  J Chem Phys       Date:  2012-11-28       Impact factor: 3.488

9.  SAXS/SANS on Supercharged Proteins Reveals Residue-Specific Modifications of the Hydration Shell.

Authors:  Henry S Kim; Anne Martel; Eric Girard; Martine Moulin; Michael Härtlein; Dominique Madern; Martin Blackledge; Bruno Franzetti; Frank Gabel
Journal:  Biophys J       Date:  2016-05-24       Impact factor: 4.033

10.  How Water's Properties Are Encoded in Its Molecular Structure and Energies.

Authors:  Emiliano Brini; Christopher J Fennell; Marivi Fernandez-Serra; Barbara Hribar-Lee; Miha Lukšič; Ken A Dill
Journal:  Chem Rev       Date:  2017-09-26       Impact factor: 60.622

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.