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Mol Syst Biol. 2017 Dec 18;13(12):962. doi: 10.15252/msb.20177608.

Landscape of nuclear transport receptor cargo specificity.

Author information

1
Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.
2
Centre for Statistical Data Analysis, European Molecular Biology Laboratory, Heidelberg, Germany.
3
Leibniz Institute on Aging, Fritz Lipmann Institute (FLI), Jena, Germany.
4
Cellular Networks and Systems Biology, CECAD, University of Cologne, Cologne, Germany.
5
Center for Molecular Medicine Cologne, University of Cologne, Cologne, Germany.
6
Heidelberg University Biochemistry Centre & Bioquant, Heidelberg, Germany.
7
Leibniz Institute on Aging, Fritz Lipmann Institute (FLI), Jena, Germany alessandro.ori@leibniz-fli.de martin.beck@embl.de.
8
Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany alessandro.ori@leibniz-fli.de martin.beck@embl.de.
9
Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany.

Abstract

Nuclear transport receptors (NTRs) recognize localization signals of cargos to facilitate their passage across the central channel of nuclear pore complexes (NPCs). About 30 different NTRs constitute different transport pathways in humans and bind to a multitude of different cargos. The exact cargo spectrum of the majority of NTRs, their specificity and even the extent to which active nucleocytoplasmic transport contributes to protein localization remains understudied because of the transient nature of these interactions and the wide dynamic range of cargo concentrations. To systematically map cargo-NTR relationships in situ, we used proximity ligation coupled to mass spectrometry (BioID). We systematically fused the engineered biotin ligase BirA* to 16 NTRs. We estimate that a considerable fraction of the human proteome is subject to active nuclear transport. We quantified the specificity and redundancy in NTR interactions and identified transport pathways for cargos. We extended the BioID method by the direct identification of biotinylation sites. This approach enabled us to identify interaction interfaces and to discriminate direct versus piggyback transport mechanisms. Data are available via ProteomeXchange with identifier PXD007976.

KEYWORDS:

interaction network; nuclear pore complex; protein transport; proteomics; proximity ligation

PMID:
29254951
PMCID:
PMC5740495
DOI:
10.15252/msb.20177608
[Indexed for MEDLINE]
Free PMC Article

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