5K0Y

m48S late-stage initiation complex, purified from rabbit reticulocytes lysates, displaying eIF2 ternary complex and eIF3 i and g subunits relocated to the intersubunit face


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

eIF3 Peripheral Subunits Rearrangement after mRNA Binding and Start-Codon Recognition.

Simonetti, A.Brito Querido, J.Myasnikov, A.G.Mancera-Martinez, E.Renaud, A.Kuhn, L.Hashem, Y.

(2016) Mol Cell 63: 206-217

  • DOI: 10.1016/j.molcel.2016.05.033
  • Primary Citation of Related Structures:  
    5K0Y, 5K1H

  • PubMed Abstract: 
  • mRNA translation initiation in eukaryotes requires the cooperation of a dozen eukaryotic initiation factors (eIFs) forming several complexes, which leads to mRNA attachment to the small ribosomal 40S subunit, mRNA scanning for start codon, and accomm ...

    mRNA translation initiation in eukaryotes requires the cooperation of a dozen eukaryotic initiation factors (eIFs) forming several complexes, which leads to mRNA attachment to the small ribosomal 40S subunit, mRNA scanning for start codon, and accommodation of initiator tRNA at the 40S P site. eIF3, composed of 13 subunits, 8 core (a, c, e, f, h, l, k, and m) and 5 peripheral (b, d, g, i, and j), plays a central role during this process. Here we report a cryo-electron microscopy structure of a mammalian 48S initiation complex at 5.8 Å resolution. It shows the relocation of subunits eIF3i and eIF3g to the 40S intersubunit face on the GTPase binding site, at a late stage in initiation. On the basis of a previous study, we demonstrate the relocation of eIF3b to the 40S intersubunit face, binding below the eIF2-Met-tRNAi(Met) ternary complex upon mRNA attachment. Our analysis reveals the deep rearrangement of eIF3 and unravels the molecular mechanism underlying eIF3 function in mRNA scanning and timing of ribosomal subunit joining.


    Organizational Affiliation

    CNRS, Architecture et Réactivité de l'ARN UPR9002, Université de Strasbourg, 67084 Strasbourg, France. Electronic address: y.hashem@ibmc-cnrs.unistra.fr.



Macromolecules

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 2 subunit 1P266Oryctolagus cuniculusMutation(s): 0 
Gene Names: EIF2S1
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS17G158Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100347468
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS9H141Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS16
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S4I263Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS4X
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS14J53Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100337712
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Ribosomal protein S9 (Predicted)K182Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS9
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS13L137Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS18
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit GM38Homo sapiensMutation(s): 0 
Gene Names: EIF3GEIF3S4
Find proteins for O75821 (Homo sapiens)
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NIH Common Fund Data Resources
PHAROS  O75821
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit GO77Homo sapiensMutation(s): 0 
Gene Names: EIF3GEIF3S4
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PHAROS  O75821
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS12Q142Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein eS19R141Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100345774
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
eukaryotic initiation factor 2 Gamma subunit (eIF2-Gamma)S422Oryctolagus cuniculusMutation(s): 0 
EC: 3.6.5.3
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit IT329Oryctolagus cuniculusMutation(s): 0 
Gene Names: EIF3IEIF3S2
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS7U191Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS5
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein eS30V59Oryctolagus cuniculusMutation(s): 0 
Gene Names: FAU
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Entity ID: 19
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ribosomal protein eS25W75Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS25
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Entity ID: 20
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ribosomal protein eS7X190Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS7
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S27Y84Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS27
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS15Z150Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS13
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Entity ID: 23
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ribosomal protein uS8a129Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS15A
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Entity ID: 24
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40S ribosomal protein S21b82Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS21
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Entity ID: 25
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ribosomal protein uS5c226Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
eukaryotic initiation factor 2 subunit Beta (eIF2-Beta)d17Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 27
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ribosomal protein eS17e126Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS17
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS2f208Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPSA
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Entity ID: 29
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ribosomal protein uS3g227Oryctolagus cuniculusMutation(s): 0 
EC: 4.2.99.18
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS10h104Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 31
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ribosomal protein eS1i215Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS3A
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetailsImage
ribosomal protein uS11j136Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 33
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ribosomal protein eS26k99Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS26
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Entity ID: 34
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ribosomal protein eS28l64Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS28
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Entity ID: 35
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ribosomal protein RACK1m313Oryctolagus cuniculusMutation(s): 0 
Gene Names: GNB2L1
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Entity ID: 36
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ribosomal protein uS19n127Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC103349305
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Entity ID: 37
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40S ribosomal protein S8o206Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS8
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Entity ID: 38
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ribosomal protein eS31p71Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100348379
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Entity ID: 39
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S6q237Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100339133RPS6
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Entity ID: 40
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40S ribosomal protein S12r124Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS12
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Entity ID: 41
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40S ribosomal protein S24s131Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS24
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Entity ID: 42
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ribosomal protein eS10t98Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPS10
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Entity ID: 1
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tRNAN75Oryctolagus cuniculus
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Entity ID: 2
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18S ribosomal RNAA1776Oryctolagus cuniculus
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Entity ID: 3
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mRNAF30Oryctolagus cuniculus
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.80 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 AgencyFranceatRAction program ANR CryoEM80S
French National Research AgencyFranceANR-10-LABX-0036_NETRNA

Revision History 

  • Version 1.0: 2016-07-13
    Type: Initial release
  • Version 1.1: 2016-08-03
    Changes: Database references
  • Version 1.2: 2017-08-02
    Changes: Data collection, Derived calculations
  • Version 1.3: 2018-04-18
    Changes: Data collection, Structure summary