8AUV image
Deposition Date 2022-08-25
Release Date 2023-06-07
Last Version Date 2024-04-24
Entry Detail
PDB ID:
8AUV
Keywords:
Title:
Cryo-EM structure of the plant 40S subunit
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.38 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS4 (40S ribosomal protein S4)
Gene (Uniprot):LOC107832245
Chain IDs:A
Chain Length:248
Number of Molecules:1
Biological Source:Nicotiana tabacum
Polymer Type:polyribonucleotide
Molecule:mRNA
Chain IDs:IA (auth: B)
Chain Length:12
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS12 (40S ribosomal protein S12)
Gene (Uniprot):LOC107803315
Chain IDs:E (auth: C)
Chain Length:144
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS17 (40S ribosomal protein S17)
Gene (Uniprot):LOC107784437
Chain IDs:F (auth: D)
Chain Length:149
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS19 (40S ribosomal protein S19)
Gene (Uniprot):LOC107773605
Chain IDs:G (auth: E)
Chain Length:130
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS1 (40S ribosomal protein S3a)
Gene (Uniprot):cyc07
Chain IDs:H (auth: F)
Chain Length:147
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS21 (40S ribosomal protein S21)
Gene (Uniprot):LOC107793454
Chain IDs:I (auth: G)
Chain Length:83
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS24 (40S ribosomal protein S24)
Gene (Uniprot):LOC107791538
Chain IDs:J (auth: H)
Chain Length:133
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS25 (40S ribosomal protein S25)
Gene (Uniprot):LOC107807859
Chain IDs:K (auth: I)
Chain Length:107
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS26 (40S ribosomal protein S26)
Gene (Uniprot):LOC107823272
Chain IDs:L (auth: J)
Chain Length:127
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS27 (40S ribosomal protein S27)
Gene (Uniprot):LOC107765692
Chain IDs:M (auth: K)
Chain Length:249
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS28 (40S ribosomal protein S28)
Gene (Uniprot):LOC107800747
Chain IDs:N (auth: L)
Chain Length:65
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS30 (40S ribosomal protein S30)
Gene (Uniprot):LOC107764876
Chain IDs:O (auth: M)
Chain Length:62
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS31 (ubiquitin-40S ribosomal protein S27a)
Gene (Uniprot):LOC107813709
Chain IDs:P (auth: N)
Chain Length:156
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS7 (40S ribosomal protein S7)
Gene (Uniprot):LOC107784137
Chain IDs:Q (auth: O)
Chain Length:191
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS8 (40S ribosomal protein S8)
Gene (Uniprot):LOC107824336
Chain IDs:R (auth: P)
Chain Length:224
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RACK1 (guanine nucleotide-binding protein subunit beta-like protein)
Gene (Uniprot):LOC107795918
Chain IDs:S (auth: Q)
Chain Length:328
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS10 (40S ribosomal protein S20)
Gene (Uniprot):LOC107765328
Chain IDs:T (auth: R)
Chain Length:122
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS11 (40S ribosomal protein S14)
Gene (Uniprot):LOC107763058
Chain IDs:U (auth: S)
Chain Length:150
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS12 (40S ribosomal protein S23)
Gene (Uniprot):LOC107816169
Chain IDs:V (auth: T)
Chain Length:142
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS13 (40S ribosomal protein S18)
Gene (Uniprot):LOC107777446
Chain IDs:W (auth: U)
Chain Length:152
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS14 (40S ribosomal protein S29)
Gene (Uniprot):LOC107832143
Chain IDs:X (auth: V)
Chain Length:56
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS15 (40S ribosomal protein S13)
Gene (Uniprot):LOC107789793
Chain IDs:Y (auth: W)
Chain Length:151
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS17 (40S ribosomal protein S11)
Gene (Uniprot):LOC107812432
Chain IDs:Z (auth: X)
Chain Length:159
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS19 (40S ribosomal protein S15)
Gene (Uniprot):LOC107829071
Chain IDs:AA (auth: Y)
Chain Length:152
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS2 (40S ribosomal protein SA)
Gene (Uniprot):LOC107772137
Chain IDs:BA (auth: Z)
Chain Length:336
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS3 (40S ribosomal protein S3)
Gene (Uniprot):LOC107813032
Chain IDs:CA (auth: a)
Chain Length:248
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS4 (40S ribosomal protein S9)
Gene (Uniprot):LOC107805765
Chain IDs:DA (auth: b)
Chain Length:12
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS5 (40S ribosomal protein S2)
Gene (Uniprot):LOC107763157
Chain IDs:EA (auth: c)
Chain Length:144
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS7 (40S ribosomal protein S5)
Gene (Uniprot):LOC107812924
Chain IDs:FA (auth: d)
Chain Length:149
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS8 (40S ribosomal protein S15a)
Gene (Uniprot):LOC107828126
Chain IDs:GA (auth: e)
Chain Length:130
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:uS9 (40S ribosomal protein S16)
Gene (Uniprot):LOC107801293
Chain IDs:HA (auth: f)
Chain Length:147
Number of Molecules:1
Biological Source:Nicotiana tabacum
Polymer Type:polyribonucleotide
Molecule:18S rRNA
Chain IDs:C (auth: h)
Chain Length:133
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS6 (40S ribosomal protein S6)
Gene (Uniprot):LOC107782679
Chain IDs:B (auth: k)
Chain Length:249
Number of Molecules:1
Biological Source:Nicotiana tabacum
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS10 (40S ribosomal protein S10)
Gene (Uniprot):LOC107829891
Chain IDs:D (auth: l)
Chain Length:65
Number of Molecules:1
Biological Source:Nicotiana tabacum
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
A2M C A modified residue
OMC C C modified residue
OMG C G modified residue
OMU C U modified residue
PSU C U modified residue
Primary Citation
Structure of the actively translating plant 80S ribosome at 2.2 angstrom resolution.
Nat.Plants 9 987 1000 (2023)
PMID: 37156858 DOI: 10.1038/s41477-023-01407-y

Abstact

In plant cells, translation occurs in three compartments: the cytosol, the plastids and the mitochondria. While the structures of the (prokaryotic-type) ribosomes in plastids and mitochondria are well characterized, high-resolution structures of the eukaryotic 80S ribosomes in the cytosol have been lacking. Here the structure of translating tobacco (Nicotiana tabacum) 80S ribosomes was solved by cryo-electron microscopy with a global resolution of 2.2 Å. The ribosome structure includes two tRNAs, decoded mRNA and the nascent peptide chain, thus providing insights into the molecular underpinnings of the cytosolic translation process in plants. The map displays conserved and plant-specific rRNA modifications and the positions of numerous ionic cofactors, and it uncovers the role of monovalent ions in the decoding centre. The model of the plant 80S ribosome enables broad phylogenetic comparisons that reveal commonalities and differences in the ribosomes of plants and those of other eukaryotes, thus putting our knowledge about eukaryotic translation on a firmer footing.

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Disease

Primary Citation of related structures