7WTX image
Entry Detail
PDB ID:
7WTX
EMDB ID:
Keywords:
Title:
Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B1
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2022-02-05
Release Date:
2022-10-19
Method Details:
Experimental Method:
Resolution:
3.10 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Description:18S rRNA
Chain IDs:A (auth: 2)
Chain Length:1873
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein SA
Chain IDs:L (auth: A)
Chain Length:295
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S3a
Chain IDs:M (auth: B)
Chain Length:264
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S2
Chain IDs:N (auth: C)
Chain Length:293
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S4, X isoform
Chain IDs:O (auth: E)
Chain Length:263
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S5
Chain IDs:B (auth: F)
Chain Length:156
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S6
Chain IDs:P (auth: G)
Chain Length:249
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S7
Chain IDs:Q (auth: H)
Chain Length:194
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S8
Chain IDs:R (auth: I)
Chain Length:208
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S9
Chain IDs:S (auth: J)
Chain Length:194
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:RRP12-like protein
Chain IDs:HA (auth: K)
Chain Length:1297
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S11
Chain IDs:T (auth: L)
Chain Length:158
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S12
Chain IDs:C (auth: M)
Chain Length:132
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S13
Chain IDs:U (auth: N)
Chain Length:151
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S14
Chain IDs:V (auth: O)
Chain Length:151
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S15
Chain IDs:D (auth: P)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S16
Chain IDs:E (auth: Q)
Chain Length:146
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S17
Chain IDs:F (auth: R)
Chain Length:135
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S18
Chain IDs:G (auth: S)
Chain Length:152
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S19
Chain IDs:H (auth: T)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S21
Chain IDs:W (auth: V)
Chain Length:83
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S15a
Chain IDs:X (auth: W)
Chain Length:130
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S23
Chain IDs:Y (auth: X)
Chain Length:143
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S24
Chain IDs:Z (auth: Y)
Chain Length:133
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S25
Chain IDs:I (auth: Z)
Chain Length:125
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S27
Chain IDs:AA (auth: b)
Chain Length:264
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S28
Chain IDs:J (auth: c)
Chain Length:293
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S30
Chain IDs:BA (auth: e)
Chain Length:263
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Ubiquitin-40S ribosomal protein S27a
Chain IDs:K (auth: f)
Chain Length:156
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Protein LTV1 homolog
Chain IDs:GA (auth: t)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Pre-rRNA-processing protein TSR1 homolog
Chain IDs:EA (auth: u)
Chain Length:804
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Bystin
Chain IDs:FA (auth: w)
Chain Length:130
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:RNA-binding protein PNO1
Chain IDs:CA (auth: x)
Chain Length:143
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:RNA-binding protein NOB1
Chain IDs:DA (auth: y)
Chain Length:133
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
The nucleoplasmic phase of pre-40S formation prior to nuclear export.
Nucleic Acids Res. 50 11924 11937 (2022)
PMID: 36321656 DOI: 10.1093/nar/gkac961

Abstact

Biogenesis of the small ribosomal subunit in eukaryotes starts in the nucleolus with the formation of a 90S precursor and ends in the cytoplasm. Here, we elucidate the enigmatic structural transitions of assembly intermediates from human and yeast cells during the nucleoplasmic maturation phase. After dissociation of all 90S factors, the 40S body adopts a close-to-mature conformation, whereas the 3' major domain, later forming the 40S head, remains entirely immature. A first coordination is facilitated by the assembly factors TSR1 and BUD23-TRMT112, followed by re-positioning of RRP12 that is already recruited early to the 90S for further head rearrangements. Eventually, the uS2 cluster, CK1 (Hrr25 in yeast) and the export factor SLX9 associate with the pre-40S to provide export competence. These exemplary findings reveal the evolutionary conserved mechanism of how yeast and humans assemble the 40S ribosomal subunit, but reveal also a few minor differences.

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Primary Citation of related structures