Literature DB >> 16332101

Importance of tensor asymmetry for the analysis of 2H NMR spectra from deuterated aromatic rings.

Peter Pulay1, Erin M Scherer, Patrick C A van der Wel, Roger E Koeppe.   

Abstract

We have used ab initio calculations to compute all of the tensor elements of the electric field gradient for each carbon-deuterium bond in the ring of deuterated 3-methyl-indole. Previous analyses have ignored the smaller tensor elements perpendicular to principal component Vzz which is aligned with the C-2H bond (local bond z-axis). At each ring position, the smallest element Vxx is in the molecular plane and Vyy is normal to the plane of the ring. The asymmetry parameter = (Vyy - Vxx)/Vzz ranges from 0.07 at C4 to 0.11 at C2. We used the perpendicular (off-bond) tensor elements, in concert with an improved understanding of the indole ring geometry, to analyze prototype 2H NMR spectra from well-oriented, hydrated peptide/lipid samples. For each of the four tryptophans of membrane-spanning gramicidin A (gA) channels, the inclusion of the perpendicular elements changes the deduced ring tilt by nearly 10 and increases the ring principal order parameter Szz for overall "wobble" with respect to the membrane normal (molecular z-axis). With the improved analysis, the magnitude of Szz for the outermost indole rings of Trp13 and Trp15 is indistinguishable from that observed previously for backbone atoms (0.93 +/- 0.03). For the Trp9 and Trp11 rings, which are slightly more buried within the membrane, Szz is slightly lower (0.86 +/- 0.03). The results show that the perpendicular elements are important for the detailed analysis of 2H NMR spectra from aromatic ring systems.

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Year:  2005        PMID: 16332101      PMCID: PMC2532822          DOI: 10.1021/ja054935x

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  23 in total

1.  Gramicidin channel controversy--the structure in a lipid environment.

Authors:  O S Andersen; H J Apell; E Bamberg; D D Busath; R E Koeppe; F J Sigworth; G Szabo; D W Urry; A Woolley
Journal:  Nat Struct Biol       Date:  1999-07

2.  Orientation of the valine-1 side chain of the gramicidin transmembrane channel and implications for channel functioning. A 2H NMR study.

Authors:  J A Killian; M J Taylor; R E Koeppe
Journal:  Biochemistry       Date:  1992-11-24       Impact factor: 3.162

3.  Environment- and sequence-dependent modulation of the double-stranded to single-stranded conformational transition of gramicidin A in membranes.

Authors:  D Salom; E Pérez-Payá; J Pascal; C Abad
Journal:  Biochemistry       Date:  1998-10-06       Impact factor: 3.162

4.  Design and characterization of gramicidin channels.

Authors:  D V Greathouse; R E Koeppe; L L Providence; S Shobana; O S Andersen
Journal:  Methods Enzymol       Date:  1999       Impact factor: 1.600

5.  The conformational preference of gramicidin channels is a function of lipid bilayer thickness.

Authors:  N Mobashery; C Nielsen; O S Andersen
Journal:  FEBS Lett       Date:  1997-07-21       Impact factor: 4.124

6.  Deuterium NMR of Val1...(2-2H)Ala3...gramicidin A in oriented DMPC bilayers.

Authors:  A W Hing; S P Adams; D F Silbert; R E Norberg
Journal:  Biochemistry       Date:  1990-05-01       Impact factor: 3.162

7.  Modulating dipoles for structure-function correlations in the gramicidin A channel.

Authors:  M Cotten; C Tian; D D Busath; R B Shirts; T A Cross
Journal:  Biochemistry       Date:  1999-07-20       Impact factor: 3.162

8.  Molecular ordering of interfacially localized tryptophan analogs in ester- and ether-lipid bilayers studied by 2H-NMR.

Authors:  S Persson; J A Killian; G Lindblom
Journal:  Biophys J       Date:  1998-09       Impact factor: 4.033

9.  Tryptophan dynamics and structural refinement in a lipid bilayer environment: solid state NMR of the gramicidin channel.

Authors:  W Hu; N D Lazo; T A Cross
Journal:  Biochemistry       Date:  1995-10-31       Impact factor: 3.162

10.  B3LYP Calculation of Deuterium Quadrupole Coupling Constants in Molecules.

Authors: 
Journal:  J Mol Spectrosc       Date:  1998-08       Impact factor: 1.507

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  9 in total

1.  Tyrosine replacing tryptophan as an anchor in GWALP peptides.

Authors:  Nicholas J Gleason; Vitaly V Vostrikov; Denise V Greathouse; Christopher V Grant; Stanley J Opella; Roger E Koeppe
Journal:  Biochemistry       Date:  2012-03-05       Impact factor: 3.162

2.  Properties of membrane-incorporated WALP peptides that are anchored on only one end.

Authors:  Johanna M Rankenberg; Vitaly V Vostrikov; Denise V Greathouse; Christopher V Grant; Stanley J Opella; Roger E Koeppe
Journal:  Biochemistry       Date:  2012-12-03       Impact factor: 3.162

3.  Single tryptophan and tyrosine comparisons in the N-terminal and C-terminal interface regions of transmembrane GWALP peptides.

Authors:  Nicholas J Gleason; Denise V Greathouse; Christopher V Grant; Stanley J Opella; Roger E Koeppe
Journal:  J Phys Chem B       Date:  2013-10-29       Impact factor: 2.991

4.  Influence of hydrophobic mismatch on structures and dynamics of gramicidin a and lipid bilayers.

Authors:  Taehoon Kim; Kyu Il Lee; Phillip Morris; Richard W Pastor; Olaf S Andersen; Wonpil Im
Journal:  Biophys J       Date:  2012-04-03       Impact factor: 4.033

5.  Response of GWALP transmembrane peptides to changes in the tryptophan anchor positions.

Authors:  Vitaly V Vostrikov; Roger E Koeppe
Journal:  Biochemistry       Date:  2011-08-12       Impact factor: 3.162

6.  The membrane interface dictates different anchor roles for "inner pair" and "outer pair" tryptophan indole rings in gramicidin A channels.

Authors:  Hong Gu; Kevin Lum; Jung H Kim; Denise V Greathouse; Olaf S Andersen; Roger E Koeppe
Journal:  Biochemistry       Date:  2011-05-13       Impact factor: 3.162

7.  Proline kink angle distributions for GWALP23 in lipid bilayers of different thicknesses.

Authors:  Johanna M Rankenberg; Vitaly V Vostrikov; Christopher D DuVall; Denise V Greathouse; Roger E Koeppe; Christopher V Grant; Stanley J Opella
Journal:  Biochemistry       Date:  2012-04-18       Impact factor: 3.162

8.  Orientation and motion of tryptophan interfacial anchors in membrane-spanning peptides.

Authors:  Patrick C A van der Wel; Nicole D Reed; Denise V Greathouse; Roger E Koeppe
Journal:  Biochemistry       Date:  2007-05-27       Impact factor: 3.162

9.  The preference of tryptophan for membrane interfaces: insights from N-methylation of tryptophans in gramicidin channels.

Authors:  Haiyan Sun; Denise V Greathouse; Olaf S Andersen; Roger E Koeppe
Journal:  J Biol Chem       Date:  2008-06-11       Impact factor: 5.157

  9 in total

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