8OM2 image
Deposition Date 2023-03-31
Release Date 2024-01-10
Last Version Date 2024-01-31
Entry Detail
PDB ID:
8OM2
Keywords:
Title:
Small subunit of yeast mitochondrial ribosome in complex with METTL17/Rsm22.
Biological Source:
Source Organism(s):
Method Details:
Experimental Method:
Resolution:
2.57 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial mRNA-processing
Gene (Uniprot):QRI5
Chain IDs:AA (auth: 1)
Chain Length:111
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein FYV4, mitochondrial
Gene (Uniprot):FYV4
Chain IDs:BA (auth: 2)
Chain Length:130
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S26, mi
Gene (Uniprot):RSM26
Chain IDs:CA (auth: 3)
Chain Length:266
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein MRP1, m
Gene (Uniprot):MRP1
Chain IDs:DA (auth: 4)
Chain Length:321
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein MRP13,
Gene (Uniprot):MRP13
Chain IDs:EA (auth: 5)
Chain Length:339
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S35, mi
Gene (Uniprot):MRPS35
Chain IDs:FA (auth: 6)
Chain Length:345
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:3-hydroxyisobutyryl-CoA hydro
Gene (Uniprot):EHD3
Chain IDs:GA (auth: 8)
Chain Length:500
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein MRP51,
Gene (Uniprot):MRP51
Chain IDs:A
Chain Length:344
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein MRP4, m
Gene (Uniprot):MRP4
Chain IDs:B
Chain Length:394
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein VAR1, mitoc
Gene (Uniprot):VAR1
Chain IDs:C
Chain Length:628
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein NAM9, m
Gene (Uniprot):NAM9
Chain IDs:D
Chain Length:486
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S5, mit
Gene (Uniprot):MRPS5
Chain IDs:E
Chain Length:307
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein MRP17,
Gene (Uniprot):MRP17
Chain IDs:F
Chain Length:131
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S7, mit
Gene (Uniprot):RSM7
Chain IDs:G
Chain Length:247
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S8, mit
Gene (Uniprot):MRPS8
Chain IDs:H
Chain Length:154
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S9, mit
Gene (Uniprot):MRPS9
Chain IDs:I
Chain Length:278
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S10, mi
Gene (Uniprot):RSM10
Chain IDs:J
Chain Length:203
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S18, mi
Gene (Uniprot):MRPS18
Chain IDs:K
Chain Length:217
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S12, mi
Gene (Uniprot):MRPS12
Chain IDs:L
Chain Length:153
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein SWS2, m
Gene (Uniprot):SWS2
Chain IDs:M
Chain Length:143
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein MRP2, m
Gene (Uniprot):MRP2
Chain IDs:N
Chain Length:115
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S28, mi
Gene (Uniprot):MRPS28
Chain IDs:O
Chain Length:286
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S16, mi
Gene (Uniprot):MRPS16
Chain IDs:P
Chain Length:121
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S17, mi
Gene (Uniprot):MRPS17
Chain IDs:Q
Chain Length:237
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein RSM18,
Gene (Uniprot):RSM18
Chain IDs:R
Chain Length:1647
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S19, mi
Gene (Uniprot):RSM19
Chain IDs:S
Chain Length:91
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein MRP21,
Gene (Uniprot):MRP21
Chain IDs:T
Chain Length:177
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S25, mi
Gene (Uniprot):RSM25
Chain IDs:U
Chain Length:264
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein PET123,
Gene (Uniprot):PET123
Chain IDs:V
Chain Length:318
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S23, mi
Gene (Uniprot):RSM23
Chain IDs:W
Chain Length:450
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial 37S ribosomal p
Gene (Uniprot):RSM27
Chain IDs:X
Chain Length:110
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein S24, mi
Gene (Uniprot):RSM24
Chain IDs:Y
Chain Length:319
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:37S ribosomal protein MRP10,
Gene (Uniprot):MRP10
Chain IDs:Z
Chain Length:95
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Probable S-adenosyl-L-methion
Gene (Uniprot):RSM22
Chain IDs:IA (auth: c)
Chain Length:628
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Polymer Type:polyribonucleotide
Molecule:15S mitochondrial rRNA
Chain IDs:HA (auth: r)
Chain Length:1647
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
SAC H SER modified residue
Primary Citation
METTL17 is an Fe-S cluster checkpoint for mitochondrial translation.
Mol. Cell 84 359 ? (2024)
PMID: 38199006 DOI: 10.1016/j.molcel.2023.12.016

Abstact

Friedreich's ataxia (FA) is a debilitating, multisystemic disease caused by the depletion of frataxin (FXN), a mitochondrial iron-sulfur (Fe-S) cluster biogenesis factor. To understand the cellular pathogenesis of FA, we performed quantitative proteomics in FXN-deficient human cells. Nearly every annotated Fe-S cluster-containing protein was depleted, indicating that as a rule, cluster binding confers stability to Fe-S proteins. We also observed depletion of a small mitoribosomal assembly factor METTL17 and evidence of impaired mitochondrial translation. Using comparative sequence analysis, mutagenesis, biochemistry, and cryoelectron microscopy, we show that METTL17 binds to the mitoribosomal small subunit during late assembly and harbors a previously unrecognized [Fe4S4]2+ cluster required for its stability. METTL17 overexpression rescued the mitochondrial translation and bioenergetic defects, but not the cellular growth, of FXN-depleted cells. These findings suggest that METTL17 acts as an Fe-S cluster checkpoint, promoting translation of Fe-S cluster-rich oxidative phosphorylation (OXPHOS) proteins only when Fe-S cofactors are replete.

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Primary Citation of related structures
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