Literature DB >> 22997137

Latest developments in experimental and computational approaches to characterize protein-lipid interactions.

Hyunju Cho1, Ming Wu, Betul Bilgin, S Patrick Walton, Christina Chan.   

Abstract

Understanding the functional roles of all the molecules in cells is an ultimate goal of modern biology. An important facet is to understand the functional contributions from intermolecular interactions, both within a class of molecules (e.g. protein-protein) or between classes (e.g. protein-DNA). While the technologies for analyzing protein-protein and protein-DNA interactions are well established, the field of protein-lipid interactions is still relatively nascent. Here, we review the current status of the experimental and computational approaches for detecting and analyzing protein-lipid interactions. Experimental technologies fall into two principal categories, namely solution-based and array-based methods. Computational methods include large-scale data-driven analyses and predictions/dynamic simulations based on prior knowledge of experimentally identified interactions. Advances in the experimental technologies have led to improved computational analyses and vice versa, thereby furthering our understanding of protein-lipid interactions and their importance in biological systems.
© 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

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Year:  2012        PMID: 22997137      PMCID: PMC3740713          DOI: 10.1002/pmic.201200255

Source DB:  PubMed          Journal:  Proteomics        ISSN: 1615-9853            Impact factor:   3.984


  97 in total

1.  cAMP regulates DEP domain-mediated binding of the guanine nucleotide exchange factor Epac1 to phosphatidic acid at the plasma membrane.

Authors:  Sarah V Consonni; Martijn Gloerich; Emma Spanjaard; Johannes L Bos
Journal:  Proc Natl Acad Sci U S A       Date:  2012-02-16       Impact factor: 11.205

2.  Structural determinants of the specificity of a membrane binding domain of the scaffold protein Ste5 of budding yeast: implications in signaling by the scaffold protein in MAPK pathway.

Authors:  Anirban Bhunia; Harini Mohanram; Surajit Bhattacharjya
Journal:  Biochim Biophys Acta       Date:  2012-01-20

3.  The effect of variable liposome brightness on quantifying lipid-protein interactions using fluorescence correlation spectroscopy.

Authors:  Ana M Melo; Manuel Prieto; Ana Coutinho
Journal:  Biochim Biophys Acta       Date:  2011-06-12

4.  Enforcing the positive charge of N-termini enhances membrane interaction and antitumor activity of bovine seminal ribonuclease.

Authors:  Gerardino D'Errico; Carmine Ercole; Marisa Lista; Elio Pizzo; Annarita Falanga; Stefania Galdiero; Roberta Spadaccini; Delia Picone
Journal:  Biochim Biophys Acta       Date:  2011-08-10

Review 5.  Building protein-protein interaction networks with proteomics and informatics tools.

Authors:  Mihaela E Sardiu; Michael P Washburn
Journal:  J Biol Chem       Date:  2011-05-12       Impact factor: 5.157

6.  Binding of peptides corresponding to the carboxy-terminal region of human-β-defensins-1-3 with model membranes investigated by isothermal titration calorimetry.

Authors:  V Krishnakumari; R Nagaraj
Journal:  Biochim Biophys Acta       Date:  2012-02-23

7.  Detection of membrane-binding proteins by surface plasmon resonance with an all-aqueous amplification scheme.

Authors:  Ying Liu; Quan Cheng
Journal:  Anal Chem       Date:  2012-03-22       Impact factor: 6.986

8.  Etched glass microarrays with differential resonance for enhanced contrast and sensitivity of surface plasmon resonance imaging analysis.

Authors:  Matthew J Linman; Abdennour Abbas; Christopher C Roberts; Quan Cheng
Journal:  Anal Chem       Date:  2011-07-11       Impact factor: 6.986

9.  Interaction of α-synuclein with vesicles that mimic mitochondrial membranes.

Authors:  Imola G Zigoneanu; Yoo Jeong Yang; Alexander S Krois; Emdadul Haque; Gary J Pielak
Journal:  Biochim Biophys Acta       Date:  2011-12-03

10.  Microarray analysis of Akt PH domain binding employing synthetic biotinylated analogs of all seven phosphoinositide headgroup isomers.

Authors:  Meng M Rowland; Denghuang Gong; Heidi E Bostic; Nathan Lucas; Wonhwa Cho; Michael D Best
Journal:  Chem Phys Lipids       Date:  2011-12-08       Impact factor: 3.329

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  4 in total

Review 1.  Sensitivity of peripheral membrane proteins to the membrane context: A case study of phosphatidylserine and the TIM proteins.

Authors:  Daniel Kerr; Gregory T Tietjen; Zhiliang Gong; Emad Tajkhorshid; Erin J Adams; Ka Yee C Lee
Journal:  Biochim Biophys Acta Biomembr       Date:  2018-06-18       Impact factor: 3.747

2.  Detecting Protein-Glycolipid Interactions Using Glycomicelles and CaR-ESI-MS.

Authors:  Ling Han; Elena N Kitova; John S Klassen
Journal:  J Am Soc Mass Spectrom       Date:  2016-08-22       Impact factor: 3.109

3.  A Machine Learning Approach for Hot-Spot Detection at Protein-Protein Interfaces.

Authors:  Rita Melo; Robert Fieldhouse; André Melo; João D G Correia; Maria Natália D S Cordeiro; Zeynep H Gümüş; Joaquim Costa; Alexandre M J J Bonvin; Irina S Moreira
Journal:  Int J Mol Sci       Date:  2016-07-27       Impact factor: 5.923

4.  Unlabeled lysophosphatidic acid receptor binding in free solution as determined by a compensated interferometric reader.

Authors:  Manisha Ray; Kazufumi Nagai; Yasuyuki Kihara; Amanda Kussrow; Michael N Kammer; Aaron Frantz; Darryl J Bornhop; Jerold Chun
Journal:  J Lipid Res       Date:  2020-06-08       Impact factor: 5.922

  4 in total

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