scholarly journals Identification of Posttranslational Modification-Dependent Protein Interactions Using Yeast Surface Displayed Human Proteome Libraries

2015 ◽  
pp. 193-202 ◽  
Author(s):  
Scott Bidlingmaier ◽  
Bin Liu
Keyword(s):  
Protein Interactions ◽  
Posttranslational Modification ◽  
Human Proteome ◽  
Dependent Protein ◽  
Yeast Surface

scholarly journals Palmitoylation-dependent protein sorting

2007 ◽  
Vol 176 (3) ◽  
pp. 249-254 ◽  
Author(s):  
Jennifer Greaves ◽  
Luke H. Chamberlain
Keyword(s):  
Membrane Protein ◽  
Protein Interactions ◽  
Posttranslational Modification ◽  
Protein Sorting ◽  
Transmembrane Proteins ◽  
Compelling Evidence ◽  
Hydrophobic Membrane ◽  
Membrane Anchor ◽  
Different Types ◽  
Dependent Protein

S-palmitoylation is a posttranslational modification that regulates membrane–protein interactions. However, palmitate is more than just a hydrophobic membrane anchor, as many different types of protein are palmitoylated, including transmembrane proteins. Indeed, there is now compelling evidence that palmitoylation plays a key role in regulating various aspects of protein sorting within the cell.

scholarly journals Yeast Surface Two-hybrid for Quantitative in Vivo Detection of Protein-Protein Interactions via the Secretory Pathway

2009 ◽  
Vol 284 (24) ◽  
pp. 16369-16376 ◽  
Author(s):  
Xuebo Hu ◽  
Sungkwon Kang ◽  
Xiaoyue Chen ◽  
Charles B. Shoemaker ◽  
Moonsoo M. Jin
Keyword(s):  
Protein Interactions ◽  
Secretory Pathway ◽  
Coiled Coil ◽  
Affinity Maturation ◽  
Antibody Binding ◽  
Soluble Form ◽  
Protein Protein Interactions ◽  
Yeast Surface ◽  
Two Hybrid

A quantitative in vivo method for detecting protein-protein interactions will enhance our understanding of protein interaction networks and facilitate affinity maturation as well as designing new interaction pairs. We have developed a novel platform, dubbed “yeast surface two-hybrid (YS2H),” to enable a quantitative measurement of pairwise protein interactions via the secretory pathway by expressing one protein (bait) anchored to the cell wall and the other (prey) in soluble form. In YS2H, the prey is released either outside of the cells or remains on the cell surface by virtue of its binding to the bait. The strength of their interaction is measured by antibody binding to the epitope tag appended to the prey or direct readout of split green fluorescence protein (GFP) complementation. When two α-helices forming coiled coils were expressed as a pair of prey and bait, the amount of the prey in complex with the bait progressively decreased as the affinity changes from 100 pm to 10 μm. With GFP complementation assay, we were able to discriminate a 6-log difference in binding affinities in the range of 100 pm to 100 μm. The affinity estimated from the level of antibody binding to fusion tags was in good agreement with that measured in solution using a surface plasmon resonance technique. In contrast, the level of GFP complementation linearly increased with the on-rate of coiled coil interactions, likely because of the irreversible nature of GFP reconstitution. Furthermore, we demonstrate the use of YS2H in exploring the nature of antigen recognition by antibodies and activation allostery in integrins and in isolating heavy chain-only antibodies against botulinum neurotoxin.

scholarly journals A computational interactome and functional annotation for the human proteome

eLife ◽  
2016 ◽  
Vol 5 ◽  
Author(s):  
José Ignacio Garzón ◽  
Lei Deng ◽  
Diana Murray ◽  
Sagi Shapira ◽  
Donald Petrey ◽  
...  
Keyword(s):  
Protein Interactions ◽  
Protein Complexes ◽  
Enrichment Analysis ◽  
Human Proteome ◽  
Gene Set Enrichment Analysis ◽  
Protein Protein Interactions ◽  
Functional Relationships ◽  
Structural Relationships ◽  
Human Proteins ◽  
Validation Tests

We present a database, PrePPI (Predicting Protein-Protein Interactions), of more than 1.35 million predicted protein-protein interactions (PPIs). Of these at least 127,000 are expected to constitute direct physical interactions although the actual number may be much larger (~500,000). The current PrePPI, which contains predicted interactions for about 85% of the human proteome, is related to an earlier version but is based on additional sources of interaction evidence and is far larger in scope. The use of structural relationships allows PrePPI to infer numerous previously unreported interactions. PrePPI has been subjected to a series of validation tests including reproducing known interactions, recapitulating multi-protein complexes, analysis of disease associated SNPs, and identifying functional relationships between interacting proteins. We show, using Gene Set Enrichment Analysis (GSEA), that predicted interaction partners can be used to annotate a protein’s function. We provide annotations for most human proteins, including many annotated as having unknown function.

scholarly journals The Bacterial Phosphoenolpyruvate:Carbohydrate Phosphotransferase System: Regulation by Protein Phosphorylation and Phosphorylation-Dependent Protein-Protein Interactions

2014 ◽  
Vol 78 (2) ◽  
pp. 231-256 ◽  
Author(s):  
Josef Deutscher ◽  
Francine Moussan Désirée Aké ◽  
Meriem Derkaoui ◽  
Arthur Constant Zébré ◽  
Thanh Nguyen Cao ◽  
...  
Keyword(s):  
Protein Phosphorylation ◽  
Protein Interactions ◽  
Protein Protein Interactions ◽  
Phosphotransferase System ◽  
Dependent Protein

Regulation of the water channel aquaporin-2 by posttranslational modification

2011 ◽  
Vol 300 (5) ◽  
pp. F1062-F1073 ◽  
Author(s):  
Hanne B. Moeller ◽  
Emma T. B. Olesen ◽  
Robert A. Fenton
Keyword(s):  
Membrane Proteins ◽  
Protein Interactions ◽  
Posttranslational Modifications ◽  
Posttranslational Modification ◽  
Water Channel ◽  
Cellular Functions ◽  
Aquaporin 2 ◽  
Eukaryotic Membrane Proteins ◽  
Insight Into

The cellular functions of many eukaryotic membrane proteins, including the vasopressin-regulated water channel aquaporin-2 (AQP2), are regulated by posttranslational modifications. In this article, we discuss the experimental discoveries that have advanced our understanding of how posttranslational modifications affect AQP2 function, especially as they relate to the role of AQP2 in the kidney. We review the most recent data demonstrating that glycosylation and, in particular, phosphorylation and ubiquitination are mechanisms that regulate AQP2 activity, subcellular sorting and distribution, degradation, and protein interactions. From a clinical perspective, posttranslational modification resulting in protein misrouting or degradation may explain certain forms of nephrogenic diabetes insipidus. In addition to providing major insight into the function and dynamics of renal AQP2 regulation, the analysis of AQP2 posttranslational modification may provide general clues as to the role of posttranslational modification for regulation of other membrane proteins.

scholarly journals Analysis of transient phosphorylation-dependent protein-protein interactions in living mammalian cells using split-TEV

2008 ◽  
Vol 8 (1) ◽  
pp. 55 ◽  
Author(s):  
Michael C Wehr ◽  
Lisa Reinecke ◽  
Anna Botvinnik ◽  
Moritz J Rossner
Keyword(s):  
Protein Interactions ◽  
Mammalian Cells ◽  
Protein Protein Interactions ◽  
Dependent Protein
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