6RW5 image
Deposition Date 2019-06-03
Release Date 2020-06-03
Last Version Date 2024-04-24
Entry Detail
PDB ID:
6RW5
Keywords:
Title:
Structure of human mitochondrial 28S ribosome in complex with mitochondrial IF2 and IF3
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
3.14 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S34, mitochondrial
Gene (Uniprot):MRPS34
Chain IDs:AA (auth: 0)
Chain Length:218
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S35, mitochondrial
Gene (Uniprot):MRPS35
Chain IDs:BA (auth: 1)
Chain Length:323
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Coiled-coil-helix-coiled-coil-helix domain-containing protein 1
Gene (Uniprot):CHCHD1
Chain IDs:CA (auth: 2)
Chain Length:117
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Aurora kinase A-interacting protein
Gene (Uniprot):AURKAIP1
Chain IDs:DA (auth: 3)
Chain Length:199
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Pentatricopeptide repeat domain-containing protein 3, mitochondrial
Gene (Uniprot):PTCD3
Chain IDs:EA (auth: 4)
Chain Length:689
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Translation initiation factor IF-2, mitochondrial
Gene (Uniprot):MTIF2
Chain IDs:FA (auth: 7)
Chain Length:699
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Translation initiation factor IF-3, mitochondrial
Gene (Uniprot):MTIF3
Chain IDs:GA (auth: 8)
Chain Length:285
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
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S2, mitochondrial
Gene (Uniprot):MRPS2
Chain IDs:B
Chain Length:296
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S24, mitochondrial
Gene (Uniprot):MRPS24
Chain IDs:C
Chain Length:167
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S5, mitochondrial
Gene (Uniprot):MRPS5
Chain IDs:D
Chain Length:430
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S6, mitochondrial
Gene (Uniprot):MRPS6
Chain IDs:E
Chain Length:125
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S7, mitochondrial
Gene (Uniprot):MRPS7
Chain IDs:F
Chain Length:242
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S9, mitochondrial
Gene (Uniprot):MRPS9
Chain IDs:G
Chain Length:396
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S10, mitochondrial
Gene (Uniprot):MRPS10
Chain IDs:H
Chain Length:201
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S11, mitochondrial
Gene (Uniprot):MRPS11
Chain IDs:I
Chain Length:194
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S12, mitochondrial
Gene (Uniprot):MRPS12
Chain IDs:J
Chain Length:138
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S14, mitochondrial
Gene (Uniprot):MRPS14
Chain IDs:K
Chain Length:128
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S15, mitochondrial
Gene (Uniprot):MRPS15
Chain IDs:L
Chain Length:257
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S16, mitochondrial
Gene (Uniprot):MRPS16
Chain IDs:M
Chain Length:137
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S17, mitochondrial
Gene (Uniprot):MRPS17
Chain IDs:N
Chain Length:130
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S18b, mitochondrial
Gene (Uniprot):MRPS18B
Chain IDs:O
Chain Length:258
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S18c, mitochondrial
Gene (Uniprot):MRPS18C
Chain IDs:P
Chain Length:142
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S21, mitochondrial
Gene (Uniprot):MRPS21
Chain IDs:Q
Chain Length:86
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S22, mitochondrial
Gene (Uniprot):MRPS22
Chain IDs:R
Chain Length:360
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S23, mitochondrial
Gene (Uniprot):MRPS23
Chain IDs:S
Chain Length:190
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S25, mitochondrial
Gene (Uniprot):MRPS25
Chain IDs:T
Chain Length:173
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S26, mitochondrial
Gene (Uniprot):MRPS26
Chain IDs:U
Chain Length:205
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S27, mitochondrial
Gene (Uniprot):MRPS27
Chain IDs:V
Chain Length:414
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S28, mitochondrial
Gene (Uniprot):MRPS28
Chain IDs:W
Chain Length:187
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S29, mitochondrial
Gene (Uniprot):DAP3
Chain IDs:X
Chain Length:398
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S31, mitochondrial
Gene (Uniprot):MRPS31
Chain IDs:Y
Chain Length:395
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:28S ribosomal protein S33, mitochondrial
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
AYA Q ALA modified residue
Primary Citation
Distinct pre-initiation steps in human mitochondrial translation.
Nat Commun 11 2932 2932 (2020)
PMID: 32522994 DOI: 10.1038/s41467-020-16503-2

Abstact

Translation initiation in human mitochondria relies upon specialized mitoribosomes and initiation factors, mtIF2 and mtIF3, which have diverged from their bacterial counterparts. Here we report two distinct mitochondrial pre-initiation assembly steps involving those factors. Single-particle cryo-EM revealed that in the first step, interactions between mitochondria-specific protein mS37 and mtIF3 keep the small mitoribosomal subunit in a conformation favorable for a subsequent accommodation of mtIF2 in the second step. Combination with fluorescence cross-correlation spectroscopy analyses suggests that mtIF3 promotes complex assembly without mRNA or initiator tRNA binding, where exclusion is achieved by the N-terminal and C-terminal domains of mtIF3. Finally, the association of large mitoribosomal subunit is required for initiator tRNA and leaderless mRNA recruitment to form a stable initiation complex. These data reveal fundamental aspects of mammalian protein synthesis that are specific to mitochondria.

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Primary Citation of related structures