SNAP output for PDB entry 5jc3 [SNAP web server]

PDB-id

5jc3; SNAP-derived features in text and JSON formats; DNAproDB

Class

immune system

Method

X-ray (2.6 Å)

Summary

Crystal structure of chicken mda5 with 5'p 10-mer dsrna and adp-mg2+ at 2.6 Å resolution (monoclinic form, twinned).

Reference

Uchikawa E, Lethier M, Malet H, Brunel J, Gerlier D, Cusack S (2016): "Structural Analysis of dsRNA Binding to Anti-viral Pattern Recognition Receptors LGP2 and MDA5." Mol.Cell, 62, 586-602. doi: 10.1016/j.molcel.2016.04.021.

Abstract

RIG-I and MDA5 sense virus-derived short 5'ppp blunt-ended or long dsRNA, respectively, causing interferon production. Non-signaling LGP2 appears to positively and negatively regulate MDA5 and RIG-I signaling, respectively. Co-crystal structures of chicken (ch) LGP2 with dsRNA display a fully or semi-closed conformation depending on the presence or absence of nucleotide. LGP2 caps blunt, 3' or 5' overhang dsRNA ends with 1 bp longer overall footprint than RIG-I. Structures of 1:1 and 2:1 complexes of chMDA5 with short dsRNA reveal head-to-head packing rather than the polar head-to-tail orientation described for long filaments. chLGP2 and chMDA5 make filaments with a similar axial repeat, although less co-operatively for chLGP2. Overall, LGP2 resembles a chimera combining a MDA5-like helicase domain and RIG-I like CTD supporting both stem and end binding. Functionally, RNA binding is required for LGP2-mediated enhancement of MDA5 activation. We propose that LGP2 end-binding may promote nucleation of MDA5 oligomerization on dsRNA.