6NF8 image
Entry Detail
PDB ID:
6NF8
EMDB ID:
Title:
Structure of human mitochondrial translation initiation factor 3 bound to the small ribosomal subunit -Class I
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2018-12-19
Release Date:
2019-02-27
Method Details:
Experimental Method:
Resolution:
3.48 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Description:28S ribosomal RNA, mitochondria
Chain IDs:A
Chain Length:955
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S2, mitochondrial
Chain IDs:W (auth: B)
Chain Length:190
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S24, mitochondrial
Chain IDs:B (auth: C)
Chain Length:173
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S5, mitochondrial
Chain IDs:C (auth: E)
Chain Length:430
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S6, mitochondrial
Chain IDs:X (auth: F)
Chain Length:124
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S7, mitochondrial
Chain IDs:M (auth: G)
Chain Length:242
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S9, mitochondrial
Chain IDs:N (auth: I)
Chain Length:396
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S10, mitochondrial
Chain IDs:O (auth: J)
Chain Length:218
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S11, mitochondrial
Chain IDs:Y (auth: K)
Chain Length:325
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S12, mitochondrial
Chain IDs:D (auth: L)
Chain Length:139
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S14, mitochondrial
Chain IDs:P (auth: N)
Chain Length:199
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S15, mitochondrial
Chain IDs:Z (auth: O)
Chain Length:575
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S16, mitochondrial
Chain IDs:E (auth: P)
Chain Length:258
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S17, mitochondrial
Chain IDs:F (auth: Q)
Chain Length:130
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S18c, mitochondrial
Chain IDs:AA (auth: R)
Chain Length:143
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S21, mitochondrial
Chain IDs:BA (auth: U)
Chain Length:87
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S22, mitochondrial
Chain IDs:G (auth: a)
Chain Length:955
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S23, mitochondrial
Chain IDs:CA (auth: b)
Chain Length:190
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S25, mitochondrial
Chain IDs:H (auth: c)
Chain Length:173
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S26, mitochondrial
Chain IDs:I (auth: d)
Chain Length:205
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S27, mitochondrial
Chain IDs:J (auth: e)
Chain Length:430
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S28, mitochondrial
Chain IDs:DA (auth: f)
Chain Length:124
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:DAP3 protein
Chain IDs:Q (auth: g)
Chain Length:242
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S31, mitochondrial
Chain IDs:R (auth: h)
Chain Length:386
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S33, mitochondrial
Chain IDs:S (auth: i)
Chain Length:396
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S34, mitochondrial
Chain IDs:K (auth: j)
Chain Length:218
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S35, mitochondrial
Chain IDs:T (auth: k)
Chain Length:325
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:Coiled-coil-helix-coiled-coil-helix domain containing 1
Chain IDs:U (auth: m)
Chain Length:118
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:Aurora kinase A interacting protein 1
Chain IDs:EA (auth: n)
Chain Length:199
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:Pentatricopeptide repeat domain-containing protein 3, mitochondrial
Chain IDs:V (auth: o)
Chain Length:575
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:28S ribosomal protein S18b, mitochondrial
Chain IDs:L (auth: p)
Chain Length:258
Number of Molecules:1
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Description:Translation initiation factor IF-3, mitochondrial
Chain IDs:FA (auth: z)
Chain Length:247
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Structure of Human Mitochondrial Translation Initiation Factor 3 Bound to the Small Ribosomal Subunit.
iScience 12 76 86 (2019)
PMID: 30677741 DOI: 10.1016/j.isci.2018.12.030

Abstact

The human mitochondrial translational initiation factor 3 (IF3mt) carries mitochondrial-specific amino acid extensions at both its N and C termini (N- and C-terminal extensions [NTE and CTE, respectively]), when compared with its eubacterial counterpart. Here we present 3.3- to 3.5-Å-resolution cryoelectron microscopic structures of the mammalian 28S mitoribosomal subunit in complex with human IF3mt. Unique contacts observed between the 28S subunit and N-terminal domain of IF3mt explain its unusually high affinity for the 28S subunit, whereas the position of the mito-specific NTE suggests NTE's role in binding of initiator tRNA to the 28S subunit. The location of the C-terminal domain (CTD) clarifies its anti-association activity, whereas the orientation of the mito-specific CTE provides a mechanistic explanation for its role in destabilizing initiator tRNA in the absence of mRNA. Furthermore, our structure hints at a possible role of the CTD in recruiting leaderless mRNAs for translation initiation. Our findings highlight unique features of IF3mt in mitochondrial translation initiation.

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Primary Citation of related structures