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- EMDB-18460: mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 1 -
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Open data
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Basic information
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Title | mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 1 | |||||||||
![]() | mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 1 | |||||||||
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![]() | Mitochondria / Assembly / GTPBP8 / RIBOSOME | |||||||||
Function / homology | ![]() rRNA import into mitochondrion / Mitochondrial translation elongation / Mitochondrial translation termination / Mitochondrial translation initiation / mitochondrial large ribosomal subunit / mitochondrial ribosome / mitochondrial translation / Mitochondrial protein degradation / cellular response to leukemia inhibitory factor / fibrillar center ...rRNA import into mitochondrion / Mitochondrial translation elongation / Mitochondrial translation termination / Mitochondrial translation initiation / mitochondrial large ribosomal subunit / mitochondrial ribosome / mitochondrial translation / Mitochondrial protein degradation / cellular response to leukemia inhibitory factor / fibrillar center / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / mitochondrial inner membrane / cytoplasmic translation / rRNA binding / negative regulation of translation / ribosome / structural constituent of ribosome / mitochondrial matrix / ribonucleoprotein complex / translation / protein domain specific binding / mRNA binding / mitochondrion / RNA binding / extracellular space / nucleoplasm / nucleus / cytosol Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.74 Å | |||||||||
![]() | Valentin Gese G / Cipullo M / Rorbach J / Hallberg BM | |||||||||
Funding support | 1 items
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![]() | ![]() Title: GTPBP8 plays a role in mitoribosome formation in human mitochondria. Authors: Miriam Cipullo / Genís Valentín Gesé / Shreekara Gopalakrishna / Annika Krueger / Vivian Lobo / Maria A Pirozhkova / James Marks / Petra Páleníková / Dmitrii Shiriaev / Yong Liu / ...Authors: Miriam Cipullo / Genís Valentín Gesé / Shreekara Gopalakrishna / Annika Krueger / Vivian Lobo / Maria A Pirozhkova / James Marks / Petra Páleníková / Dmitrii Shiriaev / Yong Liu / Jelena Misic / Yu Cai / Minh Duc Nguyen / Abubakar Abdelbagi / Xinping Li / Michal Minczuk / Markus Hafner / Daniel Benhalevy / Aishe A Sarshad / Ilian Atanassov / B Martin Hällberg / Joanna Rorbach / ![]() ![]() ![]() ![]() ![]() Abstract: Mitochondrial gene expression relies on mitoribosomes to translate mitochondrial mRNAs. The biogenesis of mitoribosomes is an intricate process involving multiple assembly factors. Among these ...Mitochondrial gene expression relies on mitoribosomes to translate mitochondrial mRNAs. The biogenesis of mitoribosomes is an intricate process involving multiple assembly factors. Among these factors, GTP-binding proteins (GTPBPs) play important roles. In bacterial systems, numerous GTPBPs are required for ribosome subunit maturation, with EngB being a GTPBP involved in the ribosomal large subunit assembly. In this study, we focus on exploring the function of GTPBP8, the human homolog of EngB. We find that ablation of GTPBP8 leads to the inhibition of mitochondrial translation, resulting in significant impairment of oxidative phosphorylation. Structural analysis of mitoribosomes from GTPBP8 knock-out cells shows the accumulation of mitoribosomal large subunit assembly intermediates that are incapable of forming functional monosomes. Furthermore, fPAR-CLIP analysis reveals that GTPBP8 is an RNA-binding protein that interacts specifically with the mitochondrial ribosome large subunit 16 S rRNA. Our study highlights the role of GTPBP8 as a component of the mitochondrial gene expression machinery involved in mitochondrial large subunit maturation. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 775.4 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 14.5 KB 14.5 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 19.7 KB | Display | ![]() |
Images | ![]() | 58.9 KB | ||
Masks | ![]() | 824 MB | ![]() | |
Filedesc metadata | ![]() | 4.2 KB | ||
Others | ![]() ![]() | 763.4 MB 763.4 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1.2 MB | Display | ![]() |
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Full document | ![]() | 1.2 MB | Display | |
Data in XML | ![]() | 29.5 KB | Display | |
Data in CIF | ![]() | 38.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8qu1MC ![]() 8qrkC ![]() 8qrlC ![]() 8qrmC ![]() 8qrnC ![]() 8qu5C M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 1 | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.01 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
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Density Histograms |
-Half map: mt-LSU assembly intermediate in GTPBP8 knock-out cells, state...
File | emd_18460_half_map_1.map | ||||||||||||
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Annotation | mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 1, half map B | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: mt-LSU assembly intermediate in GTPBP8 knock-out cells, state...
File | emd_18460_half_map_2.map | ||||||||||||
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Annotation | mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 1, half map A | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : mt-SSU assembly intermediate in GTPBP8 knock-out cells, state 2
Entire | Name: mt-SSU assembly intermediate in GTPBP8 knock-out cells, state 2 |
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Components |
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-Supramolecule #1: mt-SSU assembly intermediate in GTPBP8 knock-out cells, state 2
Supramolecule | Name: mt-SSU assembly intermediate in GTPBP8 knock-out cells, state 2 type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 1.7 MDa |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.4 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 48.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.2 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |