5C0W: Structure Of A 12-subunit Nuclear Exosome Complex Bound To Single- Stranded Rna Substrates

Citation:
Abstract
The eukaryotic exosome is a conserved RNA-degrading complex that functions in RNA surveillance, turnover and processing. How the same machinery can either completely degrade or precisely trim RNA substrates has long remained unexplained. Here we report the crystal structures of a yeast nuclear exosome containing the 9-subunit core, the 3'-5' RNases Rrp44 and Rrp6, and the obligate Rrp6-binding partner Rrp47 in complex with different RNAs. The combined structural and biochemical data of this 12-subunit complex reveal how a single-stranded RNA can reach the Rrp44 or Rrp6 active sites directly or can bind Rrp6 and be threaded via the central channel towards the distal RNase Rrp44. When a bulky RNA is stalled at the entrance of the channel, Rrp6-Rrp47 swings open. The results suggest how the same molecular machine can coordinate processive degradation and partial trimming in an RNA-dependent manner by a concerted swinging mechanism of the two RNase subunits.
PDB ID: 5C0WDownload
MMDB ID: 131353
PDB Deposition Date: 2015/6/12
Updated in MMDB: 2017/09
Experimental Method:
x-ray diffraction
Resolution: 4.6  Å
Source Organism:
Saccharomyces cerevisiae S288C
Similar Structures:
Biological Unit for 5C0W: tetradecameric; determined by software (PISA)
Molecular Components in 5C0W
Label Count Molecule
Proteins (12 molecules)
1
Exosome Complex Component Rrp45(Gene symbol: RRP45)
Molecule annotation
1
Exosome Complex Component Ski6(Gene symbol: SKI6)
Molecule annotation
1
Exosome Complex Component Rrp43(Gene symbol: RRP43)
Molecule annotation
1
Exosome Complex Component Rrp46(Gene symbol: RRP46)
Molecule annotation
1
Exosome Complex Component Rrp42(Gene symbol: RRP42)
Molecule annotation
1
Exosome Complex Component Mtr3(Gene symbol: MTR3)
Molecule annotation
1
Exosome Complex Component Rrp40(Gene symbol: RRP40)
Molecule annotation
1
Exosome Complex Component Rrp4(Gene symbol: RRP4)
Molecule annotation
1
Exosome Complex Component Csl4(Gene symbol: CSL4)
Molecule annotation
1
Exosome Complex Exonuclease Dis3(Gene symbol: DIS3)
Molecule annotation
1
Exosome Complex Exonuclease Rrp6(Gene symbol: RRP6)
Molecule annotation
1
Exosome Complex Protein Lrp1(Gene symbol: LRP1)
Molecule annotation
Nucleotide(1 molecule)
2
RNA Synthetic
Molecule annotation
Chemicals (2 molecules)
1
1
2
1
* Click molecule labels to explore molecular sequence information.

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