6X04

Nup133 (aa55-481) from S. cerevisiae bound by VHH-SAN5

Summary for 6X04

• Entry DOI: 10.2210/pdb6x04/pdb
• Descriptor: Nucleoporin NUP133, VHH-SAN5 (3 entities in total)
• Functional Keywords: structural protein, nucleoporin, nanobody
• Biological source: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast); More
• Total number of polymer chains: 12
• Total formula weight: 367488.14

Authors

Nordeen, S.A.,Schwartz, T.U. (deposition date: 2020-05-15, release date: 2020-12-09, Last modification date: 2023-10-18)

Primary citation

Nordeen, S.A.,Turman, D.L.,Schwartz, T.U.
Yeast Nup84-Nup133 complex structure details flexibility and reveals conservation of the membrane anchoring ALPS motif.
Nat Commun, 11:6060-6060, 2020

PubMed Abstract: The hallmark of the eukaryotic cell is the complex endomembrane system that compartmentalizes cellular functions. Transport into and out of the nucleus occurs through the nuclear pore complex (NPC). The heptameric Nup84 or Y complex is an essential scaffolding component of the NPC. Here we report two nanobody-bound structures: the full-length Nup84-Nup133 C-terminal domain complex and the Nup133 N-terminal domain, both from S. cerevisiae. Together with previously published structures, this work enables the structural description of the entire 575 kDa Y complex from one species. The structure of Nup84-Nup133 details the high flexibility of this dimeric unit of the Y complex. Further, the Nup133 contains a structurally conserved amphipathic lipid packing sensor motif, confirmed by liposome interaction studies. The presented structures reveal important details about the function of the Y complex that affect our understanding of NPC structure and assembly.

PubMed: 33247142
DOI: 10.1038/s41467-020-19885-5

Experimental method

X-RAY DIFFRACTION (2.68 Å)