6ZUO

Human RIO1(kd)-StHA late pre-40S particle, structural state A (pre 18S rRNA cleavage)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

The final step of 40S ribosomal subunit maturation is controlled by a dual key lock.

Plassart, L.Shayan, R.Montellese, C.Rinaldi, D.Larburu, N.Pichereaux, C.Froment, C.Lebaron, S.O'Donohue, M.F.Kutay, U.Marcoux, J.Gleizes, P.E.Plisson-Chastang, C.

(2021) Elife 10

  • DOI: 10.7554/eLife.61254
  • Primary Citation of Related Structures:  
    6ZUO, 6ZV6

  • PubMed Abstract: 
  • Preventing premature interaction of pre-ribosomes with the translation apparatus is essential for translational accuracy. Hence, the final maturation step releasing functional 40S ribosomal subunits, namely processing of the 18S ribosomal RNA 3' end, is safeguarded by the protein DIM2, which both interacts with the endoribonuclease NOB1 and masks the rRNA cleavage site ...

    Preventing premature interaction of pre-ribosomes with the translation apparatus is essential for translational accuracy. Hence, the final maturation step releasing functional 40S ribosomal subunits, namely processing of the 18S ribosomal RNA 3' end, is safeguarded by the protein DIM2, which both interacts with the endoribonuclease NOB1 and masks the rRNA cleavage site. To elucidate the control mechanism that unlocks NOB1 activity, we performed cryo-EM analysis of late human pre-40S particles purified using a catalytically-inactive form of the ATPase RIO1. These structures, together with in vivo and in vitro functional analyses, support a model in which ATP-loaded RIO1 cooperates with ribosomal protein RPS26/eS26 to displace DIM2 from the 18S rRNA 3' end, thereby triggering final cleavage by NOB1; release of ADP then leads to RIO1 dissociation from the 40S subunit. This dual key lock mechanism requiring RIO1 and RPS26 guarantees the precise timing of pre-40S particle conversion into translation-competent ribosomal subunits.


    Organizational Affiliation

    Molecular, Cellular and Developmental biology department (MCD), Centre de Biologie Integrative, University of Toulouse, Toulouse, France.



Macromolecules

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein SAB [auth A]295Homo sapiensMutation(s): 0 
Gene Names: RPSALAMBRLAMR1
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S3aC [auth B]264Homo sapiensMutation(s): 0 
Gene Names: RPS3AFTE1MFTL
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S2D [auth C]293Homo sapiensMutation(s): 0 
Gene Names: RPS2RPS4
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S3E [auth D]243Homo sapiensMutation(s): 0 
Gene Names: RPS3OK/SW-cl.26
EC: 4.2.99.18
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S4, X isoformF [auth E]263Homo sapiensMutation(s): 0 
Gene Names: RPS4XCCG2RPS4SCAR
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S5G [auth F]204Homo sapiensMutation(s): 0 
Gene Names: RPS5
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S6H [auth G]249Homo sapiensMutation(s): 0 
Gene Names: RPS6OK/SW-cl.2
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S7I [auth H]194Homo sapiensMutation(s): 0 
Gene Names: RPS7
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S8J [auth I]208Homo sapiensMutation(s): 0 
Gene Names: RPS8OK/SW-cl.83
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S9K [auth J]194Homo sapiensMutation(s): 0 
Gene Names: RPS9
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S10L [auth K]165Homo sapiensMutation(s): 0 
Gene Names: RPS10
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S11M [auth L]158Homo sapiensMutation(s): 0 
Gene Names: RPS11
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S12N [auth M]132Homo sapiensMutation(s): 0 
Gene Names: RPS12
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S13O [auth N]151Homo sapiensMutation(s): 0 
Gene Names: RPS13
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S14P [auth O]151Homo sapiensMutation(s): 0 
Gene Names: RPS14PRO2640
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S15Q [auth P]145Homo sapiensMutation(s): 0 
Gene Names: RPS15RIG
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Entity ID: 18
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40S ribosomal protein S16R [auth Q]146Homo sapiensMutation(s): 0 
Gene Names: RPS16
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S17S [auth R]135Homo sapiensMutation(s): 0 
Gene Names: RPS17RPS17L
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Entity ID: 20
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40S ribosomal protein S18T [auth S]152Homo sapiensMutation(s): 0 
Gene Names: RPS18D6S218E
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S19U [auth T]145Homo sapiensMutation(s): 0 
Gene Names: RPS19
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S20V [auth U]119Homo sapiensMutation(s): 0 
Gene Names: RPS20
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S21W [auth V]83Homo sapiensMutation(s): 0 
Gene Names: RPS21
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S15aX [auth W]130Homo sapiensMutation(s): 0 
Gene Names: RPS15AOK/SW-cl.82
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S23Y [auth X]143Homo sapiensMutation(s): 0 
Gene Names: RPS23
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S24Z [auth Y]133Homo sapiensMutation(s): 0 
Gene Names: RPS24
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S25AA [auth Z]125Homo sapiensMutation(s): 0 
Gene Names: RPS25
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S27BA [auth b]84Homo sapiensMutation(s): 0 
Gene Names: RPS27MPS1
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S28CA [auth c]69Homo sapiensMutation(s): 0 
Gene Names: RPS28
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S29DA [auth d]56Homo sapiensMutation(s): 0 
Gene Names: RPS29
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S30EA [auth e]59Homo sapiensMutation(s): 0 
Gene Names: FAU
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquitin-40S ribosomal protein S27aFA [auth f]156Homo sapiensMutation(s): 0 
Gene Names: RPS27AUBA80UBCEP1
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetailsImage
Receptor of activated protein C kinase 1GA [auth g]317Homo sapiensMutation(s): 0 
Gene Names: RACK1GNB2L1HLC7PIG21
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Entity ID: 34
MoleculeChainsSequence LengthOrganismDetailsImage
RNA-binding protein PNO1HA [auth x]252Homo sapiensMutation(s): 0 
Gene Names: PNO1
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Entity ID: 35
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RNA-binding protein NOB1IA [auth y]412Homo sapiensMutation(s): 0 
Gene Names: NOB1ART4NOB1PPSMD8BP1MSTP158
EC: 3.1
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Entity ID: 1
MoleculeChainsLengthOrganismImage
pre-18S ribosomal RNAA [auth 2]1870Homo sapiens
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Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
JA [auth d], KA [auth f], LA [auth y]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR 16-CE11-0029

Revision History  (Full details and data files)

  • Version 1.0: 2021-05-12
    Type: Initial release