8QRN image
Deposition Date 2023-10-09
Release Date 2024-06-26
Last Version Date 2024-07-17
Entry Detail
PDB ID:
8QRN
Keywords:
Title:
mt-SSU in GTPBP8 knock-out cells, state 4
Biological Source:
Source Organism(s):
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
2.98 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S34, mi
Gene (Uniprot):MRPS34
Chain IDs:AA (auth: 0)
Chain Length:218
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S35, mi
Gene (Uniprot):MRPS35
Chain IDs:BA (auth: 1)
Chain Length:323
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Coiled-coil-helix-coiled-coil
Gene (Uniprot):CHCHD1
Chain IDs:CA (auth: 2)
Chain Length:117
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Aurora kinase A-interacting p
Gene (Uniprot):AURKAIP1
Chain IDs:DA (auth: 3)
Chain Length:199
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pentatricopeptide repeat doma
Gene (Uniprot):PTCD3
Chain IDs:EA (auth: 4)
Chain Length:689
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polyribonucleotide
Molecule:fMet-tRNAMet
Chain IDs:FA (auth: 5)
Chain Length:71
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polyribonucleotide
Molecule:mRNA
Chain IDs:HA (auth: 6)
Chain Length:3
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Translation initiation factor
Gene (Uniprot):MTIF2
Chain IDs:GA (auth: 7)
Chain Length:691
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polyribonucleotide
Molecule:12S mitochondrial rRNA
Chain IDs:A
Chain Length:955
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S2, mit
Gene (Uniprot):MRPS2
Chain IDs:B
Chain Length:296
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S24, mi
Gene (Uniprot):MRPS24
Chain IDs:C
Chain Length:167
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S5, mit
Gene (Uniprot):MRPS5
Chain IDs:D
Chain Length:430
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S6, mit
Gene (Uniprot):MRPS6
Chain IDs:E
Chain Length:125
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S7, mit
Gene (Uniprot):MRPS7
Chain IDs:F
Chain Length:242
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S9, mit
Gene (Uniprot):MRPS9
Chain IDs:G
Chain Length:396
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S10, mi
Gene (Uniprot):MRPS10
Chain IDs:H
Chain Length:201
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S11, mi
Gene (Uniprot):MRPS11
Chain IDs:I
Chain Length:194
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S12, mi
Gene (Uniprot):MRPS12
Chain IDs:J
Chain Length:138
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S14, mi
Gene (Uniprot):MRPS14
Chain IDs:K
Chain Length:128
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S15, mi
Gene (Uniprot):MRPS15
Chain IDs:L
Chain Length:257
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S16, mi
Gene (Uniprot):MRPS16
Chain IDs:M
Chain Length:137
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S17, mi
Gene (Uniprot):MRPS17
Chain IDs:N
Chain Length:130
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S18b, m
Gene (Uniprot):MRPS18B
Chain IDs:O
Chain Length:258
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S18c, m
Gene (Uniprot):MRPS18C
Chain IDs:P
Chain Length:142
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S21, mi
Gene (Uniprot):MRPS21
Chain IDs:Q
Chain Length:86
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S22, mi
Gene (Uniprot):MRPS22
Chain IDs:R
Chain Length:360
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S23, mi
Gene (Uniprot):MRPS23
Chain IDs:S
Chain Length:190
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S25, mi
Gene (Uniprot):MRPS25
Chain IDs:T
Chain Length:173
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S26, mi
Gene (Uniprot):MRPS26
Chain IDs:U
Chain Length:205
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S27, mi
Gene (Uniprot):MRPS27
Chain IDs:V
Chain Length:414
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S28, mi
Gene (Uniprot):MRPS28
Chain IDs:W
Chain Length:187
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S29, mi
Gene (Uniprot):DAP3
Chain IDs:X
Chain Length:398
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S31, mi
Gene (Uniprot):MRPS31
Chain IDs:Y
Chain Length:395
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S33, mi
Gene (Uniprot):MRPS33
Chain IDs:Z
Chain Length:106
Number of Molecules:1
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
5MC A C modified residue
5MU A U modified residue
AYA Q ALA modified residue
B8T A C modified residue
MA6 A A modified residue
Primary Citation

Abstact

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.

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Disease

Primary Citation of related structures
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