Literature DB >> 19383466

Orientation and dynamics of peptides in membranes calculated from 2H-NMR data.

Erik Strandberg1, Santi Esteban-Martín, Jesús Salgado, Anne S Ulrich.   

Abstract

Solid-state (2)H-NMR is routinely used to determine the alignment of membrane-bound peptides. Here we demonstrate that it can also provide a quantitative measure of the fluctuations around the distinct molecular axes. Using several dynamic models with increasing complexity, we reanalyzed published (2)H-NMR data on two representative alpha-helical peptides: 1), the amphiphilic antimicrobial peptide PGLa, which permeabilizes membranes by going from a monomeric surface-bound to a dimeric tilted state and finally inserting as an oligomeric pore; and 2), the hydrophobic WALP23, which is a typical transmembrane segment, although previous analysis had yielded helix tilt angles much smaller than expected from hydrophobic mismatch and molecular dynamics simulations. Their (2)H-NMR data were deconvoluted in terms of the two main helix orientation angles (representing the time-averaged peptide tilt and azimuthal rotation), as well as the amplitudes of fluctuation about the corresponding molecular axes (providing the dynamic picture). The mobility of PGLa is found to be moderate and to correlate well with the respective oligomeric states. WALP23 fluctuates more vigorously, now in better agreement with the molecular dynamics simulations and mismatch predictions. The analysis demonstrates that when (2)H-NMR data are fitted to extract peptide orientation angles, an explicit representation of the peptide rigid-body angular fluctuations should be included.

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Year:  2009        PMID: 19383466      PMCID: PMC2718296          DOI: 10.1016/j.bpj.2009.02.040

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


  38 in total

1.  Action of antimicrobial peptides: two-state model.

Authors:  H W Huang
Journal:  Biochemistry       Date:  2000-07-25       Impact factor: 3.162

2.  Uniformity, ideality, and hydrogen bonds in transmembrane alpha-helices.

Authors:  Sanguk Kim; Timothy A Cross
Journal:  Biophys J       Date:  2002-10       Impact factor: 4.033

Review 3.  The description of membrane lipid conformation, order and dynamics by 2H-NMR.

Authors:  J H Davis
Journal:  Biochim Biophys Acta       Date:  1983-03-21

4.  Orientation of the antimicrobial peptide PGLa in lipid membranes determined from 19F-NMR dipolar couplings of 4-CF3-phenylglycine labels.

Authors:  Ralf W Glaser; Carsten Sachse; Ulrich H N Dürr; Parvesh Wadhwani; Anne S Ulrich
Journal:  J Magn Reson       Date:  2004-05       Impact factor: 2.229

5.  Geometry and intrinsic tilt of a tryptophan-anchored transmembrane alpha-helix determined by (2)H NMR.

Authors:  Patrick C A van der Wel; Erik Strandberg; J Antoinette Killian; Roger E Koeppe
Journal:  Biophys J       Date:  2002-09       Impact factor: 4.033

Review 6.  Lipid bilayers: an essential environment for the understanding of membrane proteins.

Authors:  Richard C Page; Conggang Li; Jian Hu; Fei Philip Gao; Timothy A Cross
Journal:  Magn Reson Chem       Date:  2007-12-19       Impact factor: 2.447

7.  Tilt angles of transmembrane model peptides in oriented and non-oriented lipid bilayers as determined by 2H solid-state NMR.

Authors:  Erik Strandberg; Suat Ozdirekcan; Dirk T S Rijkers; Patrick C A van der Wel; Roger E Koeppe; Rob M J Liskamp; J Antoinette Killian
Journal:  Biophys J       Date:  2004-06       Impact factor: 4.033

8.  Assessing the effects of time and spatial averaging in 15N chemical shift/15N-1H dipolar correlation solid state NMR experiments.

Authors:  Suzana K Straus; Walter R P Scott; Anthony Watts
Journal:  J Biomol NMR       Date:  2003-08       Impact factor: 2.835

9.  'Boomerang'-like insertion of a fusogenic peptide in a lipid membrane revealed by solid-state 19F NMR.

Authors:  Sergii Afonin; Ulrich H N Dürr; Ralf W Glaser; Anne S Ulrich
Journal:  Magn Reson Chem       Date:  2004-02       Impact factor: 2.447

10.  Dynamics of an integral membrane peptide: a deuterium NMR relaxation study of gramicidin.

Authors:  R S Prosser; J H Davis
Journal:  Biophys J       Date:  1994-05       Impact factor: 4.033

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  48 in total

1.  Knowledge-based computational methods for identifying or designing novel, non-homologous antimicrobial peptides.

Authors:  Davor Juretić; Damir Vukičević; Dražen Petrov; Mario Novković; Viktor Bojović; Bono Lučić; Nada Ilić; Alessandro Tossi
Journal:  Eur Biophys J       Date:  2011-01-28       Impact factor: 1.733

2.  Irregular structure of the HIV fusion peptide in membranes demonstrated by solid-state NMR and MD simulations.

Authors:  Dorit Grasnick; Ulrich Sternberg; Erik Strandberg; Parvesh Wadhwani; Anne S Ulrich
Journal:  Eur Biophys J       Date:  2011-01-28       Impact factor: 1.733

3.  Interpretation of 2H-NMR experiments on the orientation of the transmembrane helix WALP23 by computer simulations.

Authors:  Luca Monticelli; D Peter Tieleman; Patrick F J Fuchs
Journal:  Biophys J       Date:  2010-09-08       Impact factor: 4.033

4.  Order parameters of a transmembrane helix in a fluid bilayer: case study of a WALP peptide.

Authors:  Andrea Holt; Léa Rougier; Valérie Réat; Franck Jolibois; Olivier Saurel; Jerzy Czaplicki; J Antoinette Killian; Alain Milon
Journal:  Biophys J       Date:  2010-05-19       Impact factor: 4.033

5.  Probing the lipid-protein interface using model transmembrane peptides with a covalently linked acyl chain.

Authors:  Thomas K M Nyholm; Bianca van Duyl; Dirk T S Rijkers; Rob M J Liskamp; J Antoinette Killian
Journal:  Biophys J       Date:  2011-10-19       Impact factor: 4.033

6.  Orientation and dynamics of synthetic transbilayer polypeptides containing GpATM dimerization motifs.

Authors:  Mark C McDonald; Valerie Booth; Michael R Morrow
Journal:  Biophys J       Date:  2011-02-02       Impact factor: 4.033

7.  Influence of whole-body dynamics on 15N PISEMA NMR spectra of membrane proteins: a theoretical analysis.

Authors:  Santi Esteban-Martín; Erik Strandberg; Gustavo Fuertes; Anne S Ulrich; Jesús Salgado
Journal:  Biophys J       Date:  2009-04-22       Impact factor: 4.033

8.  Structure and topology of the huntingtin 1-17 membrane anchor by a combined solution and solid-state NMR approach.

Authors:  Matthias Michalek; Evgeniy S Salnikov; Burkhard Bechinger
Journal:  Biophys J       Date:  2013-08-06       Impact factor: 4.033

9.  Accommodation of a central arginine in a transmembrane peptide by changing the placement of anchor residues.

Authors:  Vitaly V Vostrikov; Benjamin A Hall; Mark S P Sansom; Roger E Koeppe
Journal:  J Phys Chem B       Date:  2012-10-17       Impact factor: 2.991

10.  Dynamic Heterogeneous Dielectric Generalized Born (DHDGB): An implicit membrane model with a dynamically varying bilayer thickness.

Authors:  Afra Panahi; Michael Feig
Journal:  J Chem Theory Comput       Date:  2013-03-12       Impact factor: 6.006

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