Literature DB >> 22588484

Model-based approaches for the determination of lipid bilayer structure from small-angle neutron and X-ray scattering data.

Frederick A Heberle1, Jianjun Pan, Robert F Standaert, Paul Drazba, Norbert Kučerka, John Katsaras.   

Abstract

Some of our recent work has resulted in the detailed structures of fully hydrated, fluid phase phosphatidylcholine (PC) and phosphatidylglycerol (PG) bilayers. These structures were obtained from the joint refinement of small-angle neutron and X-ray data using the scattering density profile (SDP) models developed by Kučerka et al. (Biophys J 95:2356-2367, 2008; J Phys Chem B 116:232-239, 2012). In this review, we first discuss models for the standalone analysis of neutron or X-ray scattering data from bilayers, and assess the strengths and weaknesses inherent to these models. In particular, it is recognized that standalone data do not contain enough information to fully resolve the structure of naturally disordered fluid bilayers, and therefore may not provide a robust determination of bilayer structure parameters, including the much-sought-after area per lipid. We then discuss the development of matter density-based models (including the SDP model) that allow for the joint refinement of different contrast neutron and X-ray data, as well as the implementation of local volume conservation within the unit cell (i.e., ideal packing). Such models provide natural definitions of bilayer thicknesses (most importantly the hydrophobic and Luzzati thicknesses) in terms of Gibbs dividing surfaces, and thus allow for the robust determination of lipid areas through equivalent slab relationships between bilayer thickness and lipid volume. In the final section of this review, we discuss some of the significant findings/features pertaining to structures of PC and PG bilayers as determined from SDP model analyses.

Entities:  

Mesh:

Substances:

Year:  2012        PMID: 22588484     DOI: 10.1007/s00249-012-0817-5

Source DB:  PubMed          Journal:  Eur Biophys J        ISSN: 0175-7571            Impact factor:   1.733


  85 in total

1.  Structural information from multilamellar liposomes at full hydration: full q-range fitting with high quality x-ray data.

Authors:  G Pabst; M Rappolt; H Amenitsch; P Laggner
Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics       Date:  2000-09

2.  Models to analyze small-angle neutron scattering from unilamellar lipid vesicles.

Authors:  Norbert Kucerka; John F Nagle; Scott E Feller; Pavol Balgavý
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2004-05-06

3.  An ab initio study on the torsional surface of alkanes and its effect on molecular simulations of alkanes and a DPPC bilayer.

Authors:  Jeffery B Klauda; Bernard R Brooks; Alexander D MacKerell; Richard M Venable; Richard W Pastor
Journal:  J Phys Chem B       Date:  2005-03-24       Impact factor: 2.991

4.  Adsorbed to a rigid substrate, dimyristoylphosphatidylcholine multibilayers attain full hydration in all mesophases.

Authors:  J Katsaras
Journal:  Biophys J       Date:  1998-11       Impact factor: 4.033

5.  Theory of the structure factor of lipid bilayers.

Authors: 
Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics       Date:  1994-12

6.  Neutron diffraction studies on phosphatidylcholine model membranes. II. Chain conformation and segmental disorder.

Authors:  G Zaccai; G Büldt; A Seelig; J Seelig
Journal:  J Mol Biol       Date:  1979-11-15       Impact factor: 5.469

7.  Curvature effect on the structure of phospholipid bilayers.

Authors:  Norbert Kucerka; Jeremy Pencer; Jonathan N Sachs; John F Nagle; John Katsaras
Journal:  Langmuir       Date:  2007-01-30       Impact factor: 3.882

8.  Molecular dynamics simulation of a phosphatidylglycerol membrane.

Authors:  Donald E Elmore
Journal:  FEBS Lett       Date:  2005-12-06       Impact factor: 4.124

9.  Clarification of the ripple phase of lecithin bilayers using fully hydrated, aligned samples.

Authors:  J Katsaras; S Tristram-Nagle; Y Liu; R L Headrick; E Fontes; P C Mason; J F Nagle
Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics       Date:  2000-05

10.  Phospholipid component volumes: determination and application to bilayer structure calculations.

Authors:  R S Armen; O D Uitto; S E Feller
Journal:  Biophys J       Date:  1998-08       Impact factor: 4.033

View more
  21 in total

1.  Effects of N,N-dimethyl-N-alkylamine-N-oxides on DOPC bilayers in unilamellar vesicles: small-angle neutron scattering study.

Authors:  Michal Belička; Norbert Kučerka; Daniela Uhríková; Akhmed Kh Islamov; Alexander I Kuklin; Ferdinand Devínsky; Pavol Balgavý
Journal:  Eur Biophys J       Date:  2014-04-01       Impact factor: 1.733

2.  Direct label-free imaging of nanodomains in biomimetic and biological membranes by cryogenic electron microscopy.

Authors:  Frederick A Heberle; Milka Doktorova; Haden L Scott; Allison D Skinkle; M Neal Waxham; Ilya Levental
Journal:  Proc Natl Acad Sci U S A       Date:  2020-08-05       Impact factor: 11.205

3.  On the Mechanism of Bilayer Separation by Extrusion, or Why Your LUVs Are Not Really Unilamellar.

Authors:  Haden L Scott; Allison Skinkle; Elizabeth G Kelley; M Neal Waxham; Ilya Levental; Frederick A Heberle
Journal:  Biophys J       Date:  2019-09-16       Impact factor: 4.033

4.  Molecular Structure of Sphingomyelin in Fluid Phase Bilayers Determined by the Joint Analysis of Small-Angle Neutron and X-ray Scattering Data.

Authors:  Milka Doktorova; Norbert Kučerka; Jacob J Kinnun; Jianjun Pan; Drew Marquardt; Haden L Scott; Richard M Venable; Richard W Pastor; Stephen R Wassall; John Katsaras; Frederick A Heberle
Journal:  J Phys Chem B       Date:  2020-06-16       Impact factor: 2.991

5.  Molecular dynamics simulations of depth distribution of spin-labeled phospholipids within lipid bilayer.

Authors:  Alexander Kyrychenko; Alexey S Ladokhin
Journal:  J Phys Chem B       Date:  2013-05-08       Impact factor: 2.991

6.  Interactions between ether phospholipids and cholesterol as determined by scattering and molecular dynamics simulations.

Authors:  Jianjun Pan; Xiaolin Cheng; Frederick A Heberle; Barmak Mostofian; Norbert Kučerka; Paul Drazba; John Katsaras
Journal:  J Phys Chem B       Date:  2012-12-13       Impact factor: 2.991

Review 7.  Biomembrane Structure and Material Properties Studied With Neutron Scattering.

Authors:  Jacob J Kinnun; Haden L Scott; Rana Ashkar; John Katsaras
Journal:  Front Chem       Date:  2021-04-27       Impact factor: 5.221

8.  The effect of polydispersity, shape fluctuations and curvature on small unilamellar vesicle small-angle X-ray scattering curves.

Authors:  Veronica Chappa; Yuliya Smirnova; Karlo Komorowski; Marcus Müller; Tim Salditt
Journal:  J Appl Crystallogr       Date:  2021-03-25       Impact factor: 4.868

Review 9.  Computational Modeling of Realistic Cell Membranes.

Authors:  Siewert J Marrink; Valentina Corradi; Paulo C T Souza; Helgi I Ingólfsson; D Peter Tieleman; Mark S P Sansom
Journal:  Chem Rev       Date:  2019-01-09       Impact factor: 72.087

10.  Refining internal bilayer structure of bicelles resolved by extended-q small angle X-ray scattering.

Authors:  Catherine Cheu; Lin Yang; Mu-Ping Nieh
Journal:  Chem Phys Lipids       Date:  2020-07-01       Impact factor: 3.329

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.