4GYI image
Deposition Date 2012-09-05
Release Date 2012-10-17
Last Version Date 2023-09-13
Entry Detail
PDB ID:
4GYI
Keywords:
Title:
Crystal structure of the Rio2 kinase-ADP/Mg2+-phosphoaspartate complex from Chaetomium thermophilum
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.20 Å
R-Value Free:
0.22
R-Value Work:
0.16
R-Value Observed:
0.17
Space Group:
H 3
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Rio2 kinase
Gene (Uniprot):CTHT_0033330
Chain IDs:A
Chain Length:397
Number of Molecules:1
Biological Source:Chaetomium thermophilum
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
PHD A ASP ASPARTYL PHOSPHATE
Primary Citation
ATPase-dependent role of the atypical kinase Rio2 on the evolving pre-40S ribosomal subunit.
Nat.Struct.Mol.Biol. 19 1316 1323 (2012)
PMID: 23104056 DOI: 10.1038/nsmb.2403

Abstact

Ribosome synthesis involves dynamic association of ribosome-biogenesis factors with evolving preribosomal particles. Rio2 is an atypical protein kinase required for pre-40S subunit maturation. We report the crystal structure of eukaryotic Rio2-ATP-Mg(2+) complex. The active site contains ADP-Mg(2+) and a phosphoaspartate intermediate typically found in Na(+), K(+) and Ca(2+) ATPases but not protein kinases. Consistent with this finding, ctRio2 exhibits a robust ATPase activity in vitro. In vivo, Rio2 docks on the ribosome, with its active site occluded and its flexible loop positioned to interact with the pre-40S subunit. Moreover, Rio2 catalytic activity is required for its dissociation from the ribosome, a necessary step in pre-40S maturation. We propose that phosphoryl transfer from ATP to Asp257 in Rio2's active site and subsequent hydrolysis of the aspartylphosphate could be a trigger to power late cytoplasmic 40S subunit biogenesis.

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Primary Citation of related structures