Molecular dynamics simulations and CD spectroscopy reveal hydration-induced unfolding of the intrinsically disordered LEA proteins COR15A and COR15B from Arabidopsis thaliana

被引:24
作者
Navarro-Retamal, Carlos [1 ]
Bremer, Anne [2 ]
Alzate-Morales, Jans [1 ]
Caballero, Julio [1 ]
Hincha, Dirk K. [2 ]
Gonzalez, Wendy [1 ]
Thalhammer, Anja [2 ,3 ]
机构
[1] Univ Talca, Ctr Bioinformat & Mol Simulat, 2 Norte 685,Casilla 721, Talca, Chile
[2] Max Planck Inst Mol Pflanzenphysiol, Muhlenberg 1, D-14476 Potsdam, Germany
[3] Univ Potsdam, Phys Biochem, Karl Liebknecht Str 24-25, D-14476 Potsdam, Germany
关键词
GREEN FLUORESCENT PROTEIN; SECONDARY STRUCTURE; FORCE-FIELDS; SALT BRIDGES; POTENTIAL FUNCTIONS; CIRCULAR-DICHROISM; ENERGY LANDSCAPE; HYDROPHOBIC CORE; WATER-STRESS; STABILITY;
D O I
10.1039/c6cp02272c
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
The LEA (late embryogenesis abundant) proteins COR15A and COR15B from Arabidopsis thaliana are intrinsically disordered under fully hydrated conditions, but obtain alpha-helical structure during dehydration, which is reversible upon rehydration. To understand this unusual structural transition, both proteins were investigated by circular dichroism (CD) and molecular dynamics (MD) approaches. MD simulations showed unfolding of the proteins in water, in agreement with CD data obtained with both HIS-tagged and untagged recombinant proteins. Mainly intramolecular hydrogen bonds (H-bonds) formed by the protein backbone were replaced by H-bonds with water molecules. As COR15 proteins function in vivo as protectants in leaves partially dehydrated by freezing, unfolding was further assessed under crowded conditions. Glycerol reduced (40%) or prevented (100%) unfolding during MD simulations, in agreement with CD spectroscopy results. H-bonding analysis indicated that preferential exclusion of glycerol from the protein backbone increased stability of the folded state.
引用
收藏
页码:25806 / 25816
页数:11
相关论文
共 80 条
  • [1] ICM - A NEW METHOD FOR PROTEIN MODELING AND DESIGN - APPLICATIONS TO DOCKING AND STRUCTURE PREDICTION FROM THE DISTORTED NATIVE CONFORMATION
    ABAGYAN, R
    TOTROV, M
    KUZNETSOV, D
    [J]. JOURNAL OF COMPUTATIONAL CHEMISTRY, 1994, 15 (05) : 488 - 506
  • [2] Constitutive expression of the cold-regulated Arabidopsis thaliana COR15a gene affects both chloroplast and protoplast freezing tolerance
    Artus, NN
    Uemura, M
    Steponkus, PL
    Gilmour, SJ
    Lin, CT
    Thomashow, MF
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1996, 93 (23) : 13404 - 13409
  • [3] Intrinsically disordered proteins: regulation and disease
    Babu, M. Madan
    van der Lee, Robin
    de Groot, Natalia Sanchez
    Gsponer, Joerg
    [J]. CURRENT OPINION IN STRUCTURAL BIOLOGY, 2011, 21 (03) : 432 - 440
  • [4] Insights into the binding of intrinsically disordered proteins from molecular dynamics simulation
    Baker, Christopher M.
    Best, Robert B.
    [J]. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE, 2014, 4 (03) : 182 - 198
  • [5] Forcing thermodynamically unfolded proteins to fold
    Baskakov, I
    Bolen, DW
    [J]. JOURNAL OF BIOLOGICAL CHEMISTRY, 1998, 273 (09) : 4831 - 4834
  • [6] Molecular dynamics simulation of intrinsically disordered proteins
    Battisti, Anna
    Tenenbaum, Alexander
    [J]. MOLECULAR SIMULATION, 2012, 38 (02) : 139 - 143
  • [7] A SALT BRIDGE STABILIZES THE HELIX FORMED BY ISOLATED C-PEPTIDE OF RNASE-A
    BIERZYNSKI, A
    KIM, PS
    BALDWIN, RL
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA-BIOLOGICAL SCIENCES, 1982, 79 (08): : 2470 - 2474
  • [8] Structure and energetics of the hydrogen-bonded backbone in protein folding
    Bolen, D. Wayne
    Rose, George D.
    [J]. ANNUAL REVIEW OF BIOCHEMISTRY, 2008, 77 : 339 - 362
  • [9] The osmophobic effect: Natural selection of a thermodynamic force in protein folding
    Bolen, DW
    Baskakov, IV
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 2001, 310 (05) : 955 - 963
  • [10] Experimental determination of organelle targeting-peptide cleavage sites using transient expression of green fluorescent protein translational fusions
    Candat, Adrien
    Poupart, Pauline
    Andrieu, Jean-Pierre
    Chevrollier, Arnaud
    Reynier, Pascal
    Rogniaux, Helene
    Avelange-Macherel, Marie-Helene
    Macherel, David
    [J]. ANALYTICAL BIOCHEMISTRY, 2013, 434 (01) : 44 - 51