A tri-ionic anchor mechanism drives Ube2N-specific recruitment and K63-chain ubiquitination in TRIM ligases

Nat Commun. 2019 Oct 3;10(1):4502. doi: 10.1038/s41467-019-12388-y.

Abstract

The cytosolic antibody receptor TRIM21 possesses unique ubiquitination activity that drives broad-spectrum anti-pathogen targeting and underpins the protein depletion technology Trim-Away. This activity is dependent on formation of self-anchored, K63-linked ubiquitin chains by the heterodimeric E2 enzyme Ube2N/Ube2V2. Here we reveal how TRIM21 facilitates ubiquitin transfer and differentiates this E2 from other closely related enzymes. A tri-ionic motif provides optimally distributed anchor points that allow TRIM21 to wrap an Ube2N~Ub complex around its RING domain, locking the closed conformation and promoting ubiquitin discharge. Mutation of these anchor points inhibits ubiquitination with Ube2N/Ube2V2, viral neutralization and immune signalling. We show that the same mechanism is employed by the anti-HIV restriction factor TRIM5 and identify spatially conserved ionic anchor points in other Ube2N-recruiting RING E3s. The tri-ionic motif is exclusively required for Ube2N but not Ube2D1 activity and provides a generic E2-specific catalysis mechanism for RING E3s.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Motifs / genetics
  • Antiviral Restriction Factors
  • Biocatalysis
  • Crystallography, X-Ray
  • HEK293 Cells
  • HeLa Cells
  • Humans
  • Lysine / metabolism*
  • Models, Molecular
  • Mutation
  • Nuclear Magnetic Resonance, Biomolecular
  • Protein Binding / genetics
  • Ribonucleoproteins / chemistry
  • Ribonucleoproteins / genetics
  • Ribonucleoproteins / metabolism*
  • Tripartite Motif Proteins / metabolism
  • Ubiquitin / metabolism
  • Ubiquitin-Conjugating Enzymes / chemistry
  • Ubiquitin-Conjugating Enzymes / metabolism*
  • Ubiquitin-Protein Ligases / metabolism
  • Ubiquitination / physiology*

Substances

  • Antiviral Restriction Factors
  • Ribonucleoproteins
  • SS-A antigen
  • Tripartite Motif Proteins
  • Ubiquitin
  • UBE2D1 protein, human
  • UBE2N protein, human
  • Ubiquitin-Conjugating Enzymes
  • TRIM5 protein, human
  • Ubiquitin-Protein Ligases
  • Lysine