Ubiquitin transfer by a RING E3 ligase occurs from a closed E2~ubiquitin conformation

• Published in: Nature communications Vol. 11; no. 1; pp. 2846 - 11
• Main Authors: Branigan, Emma, Carlos Penedo, J., Hay, Ronald T.
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 05.06.2020; Nature Publishing Group; Nature Portfolio
• Subjects: 631/337/458/582; 631/45/173; 631/57/2265; Catalysis; Conformation; Conjugates; Crystallography, X-Ray; Efficiency; Energy transfer; Enzymes; Fluorescence Resonance Energy Transfer; Humanities and Social Sciences; Locking; multidisciplinary; Nuclear Proteins - metabolism; Protein Structure, Tertiary; Proteins; RING Finger Domains; Science; Science (multidisciplinary); Single Molecule Imaging; Structural analysis; Substrates; Transcription Factors - metabolism; Ubiquitin; Ubiquitin - metabolism; Ubiquitin-Conjugating Enzymes - metabolism; Ubiquitin-protein ligase; Ubiquitin-Protein Ligases - metabolism; Ubiquitination
• ISSN: 2041-1723; 2041-1723
• DOI: 10.1038/s41467-020-16666-y

Based on extensive structural analysis it was proposed that RING E3 ligases prime the E2~ubiquitin conjugate (E2~Ub) for catalysis by locking it into a closed conformation, where ubiquitin is folded back onto the E2 exposing the restrained thioester bond to attack by substrate nucleophile. However the proposal that the RING dependent closed conformation of E2~Ub represents the active form that mediates ubiquitin transfer has yet to be experimentally tested. To test this hypothesis we use single molecule Förster Resonance Energy Transfer (smFRET) to measure the conformation of a FRET labelled E2~Ub conjugate, which distinguishes between closed and alternative conformations. We describe a real-time FRET assay with a thioester linked E2~Ub conjugate to monitor single ubiquitination events and demonstrate that ubiquitin is transferred to substrate from the closed conformation. These findings are likely to be relevant to all RING E3 catalysed reactions ligating ubiquitin and other ubiquitin-like proteins (Ubls) to substrates. The mechanism of ubiquitin transfer from the ubiquitin-conjugated E2 enzyme (E2~Ub) to the substrate is still under debate. Here, the authors use FRET assays to show that RING E3 ligases transfer ubiquitin to the substrate from a closed E2~Ub conformation.