3VHT

Crystal structure of GFP-Wrnip1 UBZ domain fusion protein in complex with ubiquitin

Summary for 3VHT

• Entry DOI: 10.2210/pdb3vht/pdb
• Related: 3VHS
• Descriptor: Green fluorescent protein, Green fluorescent protein,ATPase WRNIP1, Ubiquitin, ... (5 entities in total)
• Functional Keywords: green fluorescent protein, fusion protein, zinc finger, ubiquitin-binding domain, fluorescent protein-protein binding complex, fluorescent protein/protein binding
• Biological source: Aequorea victoria (Jellyfish); More
• Cellular location: Nucleus : Q96S55; Ubiquitin: Cytoplasm : P62983
• Total number of polymer chains: 3
• Total formula weight: 65492.33

Authors

Suzuki, N.,Wakatsuki, S.,Kawasaki, M. (deposition date: 2011-09-06, release date: 2012-10-10, Last modification date: 2024-11-13)

Primary citation

Suzuki, N.,Rohaim, A.,Kato, R.,Dikic, I.,Wakatsuki, S.,Kawasaki, M.
A novel mode of ubiquitin recognition by the ubiquitin-binding zinc finger domain of WRNIP1.
Febs J., 2016

PubMed Abstract: The ubiquitin-binding zinc finger (UBZ) is a type of zinc-coordinating β-β-α fold domain found mainly in proteins involved in DNA repair and transcriptional regulation. Here, we report the crystal structure of the UBZ domain of Y-family DNA polymerase (pol) η and the crystal structure of the complex between the UBZ domain of Werner helicase-interacting protein 1 (WRNIP1) and ubiquitin, crystallized using the GFP fusion technique. In contrast to the pol η UBZ, which has been proposed to bind ubiquitin via its C-terminal α-helix, ubiquitin binds to a novel surface of WRNIP1 UBZ composed of the first β-strand and the C-terminal α-helix. In addition, we report the structure of the tandem UBZ domains of Tax1-binding protein 1 (TAX1BP1) and show that the second UBZ of TAX1BP1 binds ubiquitin, presumably in a manner similar to that of WRNIP1 UBZ. We propose that UBZ domains can be divided into at least two different types in terms of the ubiquitin-binding surfaces: the pol η type and the WRNIP1 type.

PubMed: 27062441
DOI: 10.1111/febs.13734

Experimental method

X-RAY DIFFRACTION (2.4 Å)