Literature DB >> 26063070

Membrane Protein Structure, Function, and Dynamics: a Perspective from Experiments and Theory.

Zoe Cournia1, Toby W Allen, Ioan Andricioaei, Bruno Antonny, Daniel Baum, Grace Brannigan, Nicolae-Viorel Buchete, Jason T Deckman, Lucie Delemotte, Coral Del Val, Ran Friedman, Paraskevi Gkeka, Hans-Christian Hege, Jérôme Hénin, Marina A Kasimova, Antonios Kolocouris, Michael L Klein, Syma Khalid, M Joanne Lemieux, Norbert Lindow, Mahua Roy, Jana Selent, Mounir Tarek, Florentina Tofoleanu, Stefano Vanni, Sinisa Urban, David J Wales, Jeremy C Smith, Ana-Nicoleta Bondar.   

Abstract

Membrane proteins mediate processes that are fundamental for the flourishing of biological cells. Membrane-embedded transporters move ions and larger solutes across membranes; receptors mediate communication between the cell and its environment and membrane-embedded enzymes catalyze chemical reactions. Understanding these mechanisms of action requires knowledge of how the proteins couple to their fluid, hydrated lipid membrane environment. We present here current studies in computational and experimental membrane protein biophysics, and show how they address outstanding challenges in understanding the complex environmental effects on the structure, function, and dynamics of membrane proteins.

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Year:  2015        PMID: 26063070      PMCID: PMC4515176          DOI: 10.1007/s00232-015-9802-0

Source DB:  PubMed          Journal:  J Membr Biol        ISSN: 0022-2631            Impact factor:   1.843


  245 in total

1.  Optimization of receptor-G protein coupling by bilayer lipid composition I: kinetics of rhodopsin-transducin binding.

Authors:  D C Mitchell; S L Niu; B J Litman
Journal:  J Biol Chem       Date:  2001-09-05       Impact factor: 5.157

2.  Electrophysiological evidence for heptameric stoichiometry of ion channels formed by Staphylococcus aureus alpha-toxin in planar lipid bilayers.

Authors:  O V Krasilnikov; P G Merzlyak; L N Yuldasheva; C G Rodrigues; S Bhakdi; A Valeva
Journal:  Mol Microbiol       Date:  2000-09       Impact factor: 3.501

3.  Detecting protein analytes that modulate transmembrane movement of a polymer chain within a single protein pore.

Authors:  L Movileanu; S Howorka; O Braha; H Bayley
Journal:  Nat Biotechnol       Date:  2000-10       Impact factor: 54.908

Review 4.  Regulation of receptor function by cholesterol.

Authors:  K Burger; G Gimpl; F Fahrenholz
Journal:  Cell Mol Life Sci       Date:  2000-10       Impact factor: 9.261

5.  Acceleration of oligomerization, not fibrillization, is a shared property of both alpha-synuclein mutations linked to early-onset Parkinson's disease: implications for pathogenesis and therapy.

Authors:  K A Conway; S J Lee; J C Rochet; T T Ding; R E Williamson; P T Lansbury
Journal:  Proc Natl Acad Sci U S A       Date:  2000-01-18       Impact factor: 11.205

6.  Computer simulation of the rough lipopolysaccharide membrane of Pseudomonas aeruginosa.

Authors:  R D Lins; T P Straatsma
Journal:  Biophys J       Date:  2001-08       Impact factor: 4.033

7.  Effects of membrane cholesterol on the sensitivity of the GABA(A) receptor to GABA in acutely dissociated rat hippocampal neurones.

Authors:  T Sooksawate; M A Simmonds
Journal:  Neuropharmacology       Date:  2001       Impact factor: 5.250

8.  Calculation of relative binding free energy differences for fructose 1,6-bisphosphatase inhibitors using the thermodynamic cycle perturbation approach.

Authors:  M R Reddy; M D Erion
Journal:  J Am Chem Soc       Date:  2001-07-04       Impact factor: 15.419

9.  Topography of nicotinic acetylcholine receptor membrane-embedded domains.

Authors:  F J Barrantes; S S Antollini; M P Blanton; M Prieto
Journal:  J Biol Chem       Date:  2000-12-01       Impact factor: 5.157

10.  Anticonvulsant and adverse effects of avermectin analogs in mice are mediated through the gamma-aminobutyric acid(A) receptor.

Authors:  G R Dawson; K A Wafford; A Smith; G R Marshall; P J Bayley; J M Schaeffer; P T Meinke; R M McKernan
Journal:  J Pharmacol Exp Ther       Date:  2000-12       Impact factor: 4.030

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  36 in total

1.  A rapid expression and purification condition screening protocol for membrane protein structural biology.

Authors:  Dan Sjöstrand; Riccardo Diamanti; Camilla A K Lundgren; Benjamin Wiseman; Martin Högbom
Journal:  Protein Sci       Date:  2017-05-31       Impact factor: 6.725

2.  Contrast-Matching Detergent in Small-Angle Neutron Scattering Experiments for Membrane Protein Structural Analysis and Ab Initio Modeling.

Authors:  Ryan C Oliver; Swe-Htet Naing; Kevin L Weiss; Sai Venkatesh Pingali; Raquel L Lieberman; Volker S Urban
Journal:  J Vis Exp       Date:  2018-10-21       Impact factor: 1.355

3.  Single-Molecule Analyses Reveal Rhomboid Proteins Are Strict and Functional Monomers in the Membrane.

Authors:  Alex J B Kreutzberger; Siniša Urban
Journal:  Biophys J       Date:  2018-10-02       Impact factor: 4.033

4.  Conformational analysis of replica exchange MD: Temperature-dependent Markov networks for FF amyloid peptides.

Authors:  Brajesh Narayan; Colm Herbert; Ye Yuan; Brian J Rodriguez; Bernard R Brooks; Nicolae-Viorel Buchete
Journal:  J Chem Phys       Date:  2018-08-21       Impact factor: 3.488

5.  Surface-Induced Dissociation: An Effective Method for Characterization of Protein Quaternary Structure.

Authors:  Alyssa Q Stiving; Zachary L VanAernum; Florian Busch; Sophie R Harvey; Samantha H Sarni; Vicki H Wysocki
Journal:  Anal Chem       Date:  2018-12-18       Impact factor: 6.986

6.  Presence of substrate aids lateral gate separation in LptD.

Authors:  Karl P Lundquist; James C Gumbart
Journal:  Biochim Biophys Acta Biomembr       Date:  2019-07-25       Impact factor: 3.747

Review 7.  Use of paramagnetic systems to speed-up NMR data acquisition and for structural and dynamic studies.

Authors:  Vojč Kocman; Giacomo M Di Mauro; Gianluigi Veglia; Ayyalusamy Ramamoorthy
Journal:  Solid State Nucl Magn Reson       Date:  2019-07-12       Impact factor: 2.293

8.  Comparison of NMR and crystal structures of membrane proteins and computational refinement to improve model quality.

Authors:  Julia Koehler Leman; Andrew R D'Avino; Yash Bhatnagar; Jeffrey J Gray
Journal:  Proteins       Date:  2017-11-08

9.  Effect of 5-trans Isomer of Arachidonic Acid on Model Liposomal Membranes Studied by a Combined Simulation and Experimental Approach.

Authors:  Ioanna Tremi; Dimitrios Anagnostopoulos; Ellas Spyratou; Paraskevi Gkeka; Alexandros G Georgakilas; Chryssostomos Chatgilialoglu; Zoe Cournia
Journal:  J Membr Biol       Date:  2018-04-02       Impact factor: 1.843

Review 10.  Molecular dynamics simulations of biological membranes and membrane proteins using enhanced conformational sampling algorithms.

Authors:  Takaharu Mori; Naoyuki Miyashita; Wonpil Im; Michael Feig; Yuji Sugita
Journal:  Biochim Biophys Acta       Date:  2016-01-05
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