3J16 image
Deposition Date 2011-12-12
Release Date 2012-02-22
Last Version Date 2024-02-21
Entry Detail
PDB ID:
3J16
Keywords:
Title:
Models of ribosome-bound Dom34p and Rli1p and their ribosomal binding partners
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
7.20 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dom34p
Gene (Uniprot):DOM34
Chain IDs:A
Chain Length:386
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Rli1p
Gene (Uniprot):RLI1
Chain IDs:B
Chain Length:608
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S6E
Gene (Uniprot):RPS6A
Chain IDs:I (auth: C)
Chain Length:236
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S24-A
Gene (Uniprot):RPS24A
Chain IDs:L (auth: D)
Chain Length:135
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S30E
Gene (Uniprot):RPS30A
Chain IDs:G (auth: E)
Chain Length:63
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L6
Gene (Uniprot):RPL9A
Chain IDs:F
Chain Length:191
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L10
Gene (Uniprot):RPP0
Chain IDs:H (auth: G)
Chain Length:312
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L11
Gene (Uniprot):RPL12A
Chain IDs:J (auth: H)
Chain Length:165
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S24E
Gene (Uniprot):RPL23A
Chain IDs:K (auth: I)
Chain Length:137
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polyribonucleotide
Molecule:28S ribosomal RNA
Chain IDs:C (auth: J)
Chain Length:233
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polyribonucleotide
Molecule:18S ribosomal RNA
Chain IDs:D (auth: K)
Chain Length:155
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polyribonucleotide
Molecule:P-site tRNA
Chain IDs:E (auth: L)
Chain Length:75
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Primary Citation
Structural basis of highly conserved ribosome recycling in eukaryotes and archaea.
Nature 482 501 506 (2012)
PMID: 22358840 DOI: 10.1038/nature10829

Abstact

Ribosome-driven protein biosynthesis is comprised of four phases: initiation, elongation, termination and recycling. In bacteria, ribosome recycling requires ribosome recycling factor and elongation factor G, and several structures of bacterial recycling complexes have been determined. In the eukaryotic and archaeal kingdoms, however, recycling involves the ABC-type ATPase ABCE1 and little is known about its structural basis. Here we present cryo-electron microscopy reconstructions of eukaryotic and archaeal ribosome recycling complexes containing ABCE1 and the termination factor paralogue Pelota. These structures reveal the overall binding mode of ABCE1 to be similar to canonical translation factors. Moreover, the iron-sulphur cluster domain of ABCE1 interacts with and stabilizes Pelota in a conformation that reaches towards the peptidyl transferase centre, thus explaining how ABCE1 may stimulate peptide-release activity of canonical termination factors. Using the mechanochemical properties of ABCE1, a conserved mechanism in archaea and eukaryotes is suggested that couples translation termination to recycling, and eventually to re-initiation.

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