Journal Article

Cryo-EM structure of a human spliceosome activated for step 2 of splicing

Agafonov, Dmitry E., Liu, Wen-Ti, Bertram, Karl, Hartmuth, Klaus, Dybkov, Olexandr, Will, Cindy L., Urlaub, Henning, Stark, Holger, Kastner, Berthold, Lührmann, Reinhard

2017

Overview

Spliceosome rearrangements facilitated by RNA helicase PRP16 before catalytic step two of splicing are poorly understood. Here we report a 3D cryo-electron microscopy structure of the human spliceosomal C complex stalled directly after PRP16 action (C*). The architecture of the catalytic U2–U6 ribonucleoprotein (RNP) core of the human C* spliceosome is very similar to that of the yeast pre-Prp16 C complex. However, in C* the branched intron region is separated from the catalytic centre by approximately 20 Å, and its position close to the U6 small nuclear RNA ACAGA box is stabilized by interactions with the PRP8 RNase H-like and PRP17 WD40 domains. RNA helicase PRP22 is located about 100 Å from the catalytic centre, suggesting that it destabilizes the spliced mRNA after step two from a distance. Comparison of the structure of the yeast C and human C* complexes reveals numerous RNP rearrangements that are likely to be facilitated by PRP16, including a large-scale movement of the U2 small nuclear RNP. The cryo-EM structure of the splicing intermediate known as the C* complex from human. Structure of the spliceosomal C* complex Recent years have seen substantial progress in understanding the structure of various intermediates of the splicing process. Two groups, led by Reinhard Lührmann and Kiyoshi Nagai, now describe the cryo-electron microscopy structures (from human and yeast cells, respectively) of the splicing intermediate known as the C* complex. The notable feature observed in this complex, relative to the preceding catalytic intermediate (the C complex), is a remodelling that positions the branch-site adenosine and the branched intron out of the catalytic core, opening up space for the 3′ exon to dock in preparation for exon ligation.

• Publisher: Nature Publishing Group UK,Nature Publishing Group
• Subject: 631/337/1645/1792 / 631/535/1258/1259 / Adenosine - metabolism / Base Sequence / Biocatalysis / Catalysis / Cell Cycle Proteins - chemistry / Cell Cycle Proteins - metabolism / Cell Cycle Proteins - ultrastructure / Cryoelectron Microscopy / DEAD-box RNA Helicases - chemistry / DEAD-box RNA Helicases - metabolism / DEAD-box RNA Helicases - ultrastructure / Exons - genetics / Genetic engineering / Genetic research / Humanities and Social Sciences / Humans / Introns - genetics / Methods / Microscopy / Models, Molecular / Molecular structure / Movement / multidisciplinary / Protein Domains / Proteins / Ribonuclease H - chemistry / Ribonuclease H - metabolism / Ribonucleic acid / Ribonucleoproteins, Small Nuclear - chemistry / Ribonucleoproteins, Small Nuclear - metabolism / Ribonucleoproteins, Small Nuclear - ultrastructure / RNA / RNA Splicing / RNA Splicing Factors - chemistry / RNA Splicing Factors - metabolism / RNA Splicing Factors - ultrastructure / RNA Stability / RNA, Messenger - chemistry / RNA, Messenger - genetics / RNA, Messenger - metabolism / RNA-Binding Proteins - chemistry / RNA-Binding Proteins - metabolism / RNA-Binding Proteins - ultrastructure / Saccharomyces cerevisiae - chemistry / Saccharomyces cerevisiae - enzymology / Science / Spliceosomes - chemistry / Spliceosomes - metabolism / Spliceosomes - ultrastructure / Yeast / Yeasts