6RBE image
Entry Detail
PDB ID:
6RBE
EMDB ID:
Keywords:
Title:
State 2 of yeast Tsr1-TAP Rps20-Deltaloop pre-40S particles
Biological Source:
PDB Version:
Deposition Date:
2019-04-10
Release Date:
2019-06-26
Method Details:
Experimental Method:
Resolution:
3.80 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Description:18S ribosomal RNA
Chain IDs:A (auth: 2)
Chain Length:1800
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288c
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S0-A
Chain IDs:B (auth: A)
Chain Length:252
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S1-A
Chain IDs:C (auth: B)
Chain Length:255
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S2
Chain IDs:D (auth: C)
Chain Length:254
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S3
Chain IDs:U (auth: D)
Chain Length:56
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S4-A
Chain IDs:E
Chain Length:63
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S5
Chain IDs:V (auth: F)
Chain Length:152
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S6-A
Chain IDs:F (auth: G)
Chain Length:236
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S7-A
Chain IDs:G (auth: H)
Chain Length:190
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S8-A
Chain IDs:H (auth: I)
Chain Length:200
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S9-A
Chain IDs:I (auth: J)
Chain Length:197
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S10-A
Chain IDs:W (auth: K)
Chain Length:105
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S11-A
Chain IDs:J (auth: L)
Chain Length:156
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S12
Chain IDs:X (auth: M)
Chain Length:143
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S13
Chain IDs:K (auth: N)
Chain Length:151
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S14-A
Chain IDs:L (auth: O)
Chain Length:137
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S15
Chain IDs:Y (auth: P)
Chain Length:142
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S16-A
Chain IDs:Z (auth: Q)
Chain Length:143
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S17-A
Chain IDs:M (auth: R)
Chain Length:136
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S18-A
Chain IDs:AA (auth: S)
Chain Length:146
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S19-A
Chain IDs:BA (auth: T)
Chain Length:144
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S20
Chain IDs:CA (auth: U)
Chain Length:121
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S21-A
Chain IDs:N (auth: V)
Chain Length:87
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S22-A
Chain IDs:O (auth: W)
Chain Length:130
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S23-A
Chain IDs:P (auth: X)
Chain Length:145
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S24-A
Chain IDs:Q (auth: Y)
Chain Length:135
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S25-A
Chain IDs:DA (auth: Z)
Chain Length:108
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S27-A
Chain IDs:R (auth: b)
Chain Length:255
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S28-A
Chain IDs:EA (auth: c)
Chain Length:254
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S29-A
Chain IDs:S (auth: d)
Chain Length:56
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S30-A
Chain IDs:T (auth: e)
Chain Length:63
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:Ubiquitin-40S ribosomal protein S31
Chain IDs:FA (auth: f)
Chain Length:152
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Description:Guanine nucleotide-binding protein subunit beta-like protein
Chain IDs:GA (auth: g)
Chain Length:236
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Ligand Molecules
Primary Citation
Conformational proofreading of distant 40S ribosomal subunit maturation events by a long-range communication mechanism.
Nat Commun 10 2754 2754 (2019)
PMID: 31227701 DOI: 10.1038/s41467-019-10678-z

Abstact

Eukaryotic ribosomes are synthesized in a hierarchical process driven by a plethora of assembly factors, but how maturation events at physically distant sites on pre-ribosomes are coordinated is poorly understood. Using functional analyses and cryo-EM, we show that ribosomal protein Rps20 orchestrates communication between two multi-step maturation events across the pre-40S subunit. Our study reveals that during pre-40S maturation, formation of essential contacts between Rps20 and Rps3 permits assembly factor Ltv1 to recruit the Hrr25 kinase, thereby promoting Ltv1 phosphorylation. In parallel, a deeply buried Rps20 loop reaches to the opposite pre-40S side, where it stimulates Rio2 ATPase activity. Both cascades converge to the final maturation steps releasing Rio2 and phosphorylated Ltv1. We propose that conformational proofreading exerted via Rps20 constitutes a checkpoint permitting assembly factor release and progression of pre-40S maturation only after completion of all earlier maturation steps.

Legend

Protein

Chemical

Disease

Primary Citation of related structures