7OZS image
Entry Detail
PDB ID:
7OZS
EMDB ID:
Title:
Structure of the hexameric 5S RNP from C. thermophilum
Biological Source:
PDB Version:
Deposition Date:
2021-06-28
Release Date:
2022-10-12
Method Details:
Experimental Method:
Resolution:
3.50 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Description:5S rRNA
Chain IDs:E (auth: 3)
Chain Length:119
Number of Molecules:1
Biological Source:Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)
Polymer Type:polypeptide(L)
Description:60S ribosomal protein l5-like protein
Chain IDs:B (auth: A)
Chain Length:304
Number of Molecules:1
Biological Source:Thermochaetoides thermophila DSM 1495
Polymer Type:polypeptide(L)
Description:Putative ribosomal protein
Chain IDs:A (auth: B)
Chain Length:173
Number of Molecules:1
Biological Source:Thermochaetoides thermophila DSM 1495
Polymer Type:polypeptide(L)
Description:Ribosome production factor 2 homolog
Chain IDs:D (auth: C)
Chain Length:350
Number of Molecules:1
Biological Source:Thermochaetoides thermophila DSM 1495
Polymer Type:polypeptide(L)
Description:Ribosome biogenesis regulatory protein
Chain IDs:C (auth: D)
Chain Length:202
Number of Molecules:1
Biological Source:Thermochaetoides thermophila DSM 1495
Polymer Type:polypeptide(L)
Description:unknown
Chain IDs:F (auth: E)
Chain Length:23
Number of Molecules:1
Biological Source:Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719)
Polymer Type:polypeptide(L)
Description:Syo1
Chain IDs:G (auth: F)
Chain Length:676
Number of Molecules:1
Biological Source:Thermochaetoides thermophila DSM 1495
Ligand Molecules
Primary Citation
Structure of nascent 5S RNPs at the crossroad between ribosome assembly and MDM2-p53 pathways.
Nat.Struct.Mol.Biol. ? ? ? (2023)
PMID: 37291423 DOI: 10.1038/s41594-023-01006-7

Abstact

The 5S ribonucleoprotein (RNP) is assembled from its three components (5S rRNA, Rpl5/uL18 and Rpl11/uL5) before being incorporated into the pre-60S subunit. However, when ribosome synthesis is disturbed, a free 5S RNP can enter the MDM2-p53 pathway to regulate cell cycle and apoptotic signaling. Here we reconstitute and determine the cryo-electron microscopy structure of the conserved hexameric 5S RNP with fungal or human factors. This reveals how the nascent 5S rRNA associates with the initial nuclear import complex Syo1-uL18-uL5 and, upon further recruitment of the nucleolar factors Rpf2 and Rrs1, develops into the 5S RNP precursor that can assemble into the pre-ribosome. In addition, we elucidate the structure of another 5S RNP intermediate, carrying the human ubiquitin ligase Mdm2, which unravels how this enzyme can be sequestered from its target substrate p53. Our data provide molecular insight into how the 5S RNP can mediate between ribosome biogenesis and cell proliferation.

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Primary Citation of related structures