6ND4

Conformational switches control early maturation of the eukaryotic small ribosomal subunit


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 2.1 of the entry. See complete history


Literature

Conformational switches control early maturation of the eukaryotic small ribosomal subunit.

Hunziker, M.Barandun, J.Buzovetsky, O.Steckler, C.Molina, H.Klinge, S.

(2019) Elife 8

  • DOI: https://doi.org/10.7554/eLife.45185
  • Primary Citation of Related Structures:  
    6ND4

  • PubMed Abstract: 

    Eukaryotic ribosome biogenesis is initiated with the transcription of pre-ribosomal RNA at the 5' external transcribed spacer, which directs the early association of assembly factors but is absent from the mature ribosome. The subsequent co-transcriptional association of ribosome assembly factors with pre-ribosomal RNA results in the formation of the small subunit processome. Here we show that stable rRNA domains of the small ribosomal subunit can independently recruit their own biogenesis factors in vivo. The final assembly and compaction of the small subunit processome requires the presence of the 5' external transcribed spacer RNA and all ribosomal RNA domains. Additionally, our cryo-electron microscopy structure of the earliest nucleolar pre-ribosomal assembly - the 5' external transcribed spacer ribonucleoprotein - provides a mechanism for how conformational changes in multi-protein complexes can be employed to regulate the accessibility of binding sites and therefore define the chronology of maturation events during early stages of ribosome assembly.


  • Organizational Affiliation

    Laboratory of Protein and Nucleic Acid Chemistry, The Rockefeller University, New York, United States.


Macromolecules

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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Utp17D [auth H]853Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 5
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Utp8E [auth I]519Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Utp15F [auth J]513Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Utp9G [auth K]183Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Utp5H [auth L]643Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Utp10I [auth M]1,769Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Utp4J [auth N]727Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Utp1K [auth O]923Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Utp6L [auth P]421Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Utp12M [auth Q]917Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Utp13N [auth R]736Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Utp18O [auth S]594Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Utp21P [auth T]939Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Sof1Q [auth U]489Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Utp7R [auth W]554Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
Imp3S [auth Z]183Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
Mpp10T [auth A]593Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
Bud21U [auth D]214Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
Nop56V [auth a]494Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
Nop58W [auth b]503Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
Nop1.1X [auth c],
Y [auth d]
327Saccharomyces cerevisiae BY4741Mutation(s): 0 
EC: 2.1.1
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
Snu13AA [auth f],
Z [auth e]
126Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
Rrp9BA [auth g]573Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
Utp24CA [auth l]189Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
Unidentified fragmentDA [auth x]24Saccharomyces cerevisiae BY4741Mutation(s): 0 
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Entity ID: 1
MoleculeChains LengthOrganismImage
5'ETS rRNAA [auth 0]700Saccharomyces cerevisiae BY4741
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Entity ID: 2
MoleculeChains LengthOrganismImage
18S rRNA 5' domain startB [auth 1]15Saccharomyces cerevisiae BY4741
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Entity ID: 3
MoleculeChains LengthOrganismImage
U3 snoRNAC [auth 2]146Saccharomyces cerevisiae BY4741
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION3

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/Office of the DirectorUnited States1DP2GM123459
Swiss National Science FoundationSwitzerland155515

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-19
    Type: Initial release
  • Version 1.1: 2019-06-26
    Changes: Data collection, Structure summary
  • Version 1.2: 2019-07-03
    Changes: Data collection, Database references
  • Version 2.0: 2019-12-18
    Changes: Other, Polymer sequence
  • Version 2.1: 2024-03-20
    Changes: Data collection, Database references, Refinement description