3J80

CryoEM structure of 40S-eIF1-eIF1A preinitiation complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.75 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural changes enable start codon recognition by the eukaryotic translation initiation complex.

Hussain, T.Llacer, J.L.Fernandez, I.S.Munoz, A.Martin-Marcos, P.Savva, C.G.Lorsch, J.R.Hinnebusch, A.G.Ramakrishnan, V.

(2014) Cell 159: 597-607

  • DOI: 10.1016/j.cell.2014.10.001
  • Primary Citation of Related Structures:  
    3J81, 3J80

  • PubMed Abstract: 
  • During eukaryotic translation initiation, initiator tRNA does not insert fully into the P decoding site on the 40S ribosomal subunit. This conformation (POUT) is compatible with scanning mRNA for the AUG start codon. Base pairing with AUG is thought ...

    During eukaryotic translation initiation, initiator tRNA does not insert fully into the P decoding site on the 40S ribosomal subunit. This conformation (POUT) is compatible with scanning mRNA for the AUG start codon. Base pairing with AUG is thought to promote isomerization to a more stable conformation (PIN) that arrests scanning and promotes dissociation of eIF1 from the 40S subunit. Here, we present a cryoEM reconstruction of a yeast preinitiation complex at 4.0 Å resolution with initiator tRNA in the PIN state, prior to eIF1 release. The structure reveals stabilization of the codon-anticodon duplex by the N-terminal tail of eIF1A, changes in the structure of eIF1 likely instrumental in its subsequent release, and changes in the conformation of eIF2. The mRNA traverses the entire mRNA cleft and makes connections to the regulatory domain of eIF2?, eIF1A, and ribosomal elements that allow recognition of context nucleotides surrounding the AUG codon.


    Organizational Affiliation

    MRC Laboratory of Molecular Biology, Cambridge CB2 0QH, UK. Electronic address: ramak@mrc-lmb.cam.ac.uk.



Macromolecules

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
uS2A254Kluyveromyces lactisMutation(s): 0 
Find proteins for Q6CN12 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 3
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eS1B255Kluyveromyces lactisMutation(s): 0 
Find proteins for Q6CWD0 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 5
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eS4E261Kluyveromyces lactisMutation(s): 0 
Find proteins for Q6CWJ2 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
eS6G236Kluyveromyces lactisMutation(s): 0 
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
eS7H190Kluyveromyces lactisMutation(s): 0 
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Entity ID: 8
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eS8I201Kluyveromyces lactisMutation(s): 0 
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Entity ID: 9
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uS4J188Kluyveromyces lactisMutation(s): 0 
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Entity ID: 11
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uS15N151Kluyveromyces lactisMutation(s): 0 
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Entity ID: 12
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uS11O137Kluyveromyces lactisMutation(s): 0 
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
eS21V87Kluyveromyces lactisMutation(s): 0 
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Entity ID: 14
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uS8W130Kluyveromyces lactisMutation(s): 0 
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
uS12X145Kluyveromyces lactisMutation(s): 0 
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
eS24Y135Kluyveromyces lactisMutation(s): 0 
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Entity ID: 17
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eS26a119Kluyveromyces lactisMutation(s): 0 
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
eS27b82Kluyveromyces lactisMutation(s): 0 
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Entity ID: 21
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uS7F227Kluyveromyces lactisMutation(s): 0 
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
eS10K106Kluyveromyces lactisMutation(s): 0 
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Entity ID: 25
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uS9Q143Kluyveromyces lactisMutation(s): 0 
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Entity ID: 28
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eS19T144Kluyveromyces lactisMutation(s): 0 
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetailsImage
uS10U117Kluyveromyces lactisMutation(s): 0 
Find proteins for Q6CIM1 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 30
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eS25Z108Kluyveromyces lactisMutation(s): 0 
Find proteins for Q6CW78 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 31
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eS28c67Kluyveromyces lactisMutation(s): 0 
Find proteins for P33285 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 32
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uS14d56Kluyveromyces lactisMutation(s): 0 
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Entity ID: 34
MoleculeChainsSequence LengthOrganismDetailsImage
RACK1g326Kluyveromyces lactisMutation(s): 0 
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Entity ID: 35
MoleculeChainsSequence LengthOrganismDetailsImage
eL41h25Saccharomyces cerevisiaeMutation(s): 0 
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Entity ID: 36
MoleculeChainsSequence LengthOrganismDetailsImage
eIF1Ai153Saccharomyces cerevisiaeMutation(s): 0 
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Entity ID: 37
MoleculeChainsSequence LengthOrganismDetailsImage
eIF1j108Saccharomyces cerevisiaeMutation(s): 0 
Find proteins for P32911 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
uS17L156Kluyveromyces lactisMutation(s): 0 
Find proteins for Q6CX80 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 19
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eS30e63Kluyveromyces lactisMutation(s): 0 
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Entity ID: 20
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uS3D237Kluyveromyces lactisMutation(s): 0 
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Entity ID: 23
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eS12M134Kluyveromyces lactisMutation(s): 0 
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Entity ID: 24
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uS19P140Kluyveromyces lactisMutation(s): 0 
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Entity ID: 26
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eS17R136Kluyveromyces lactisMutation(s): 0 
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Entity ID: 27
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uS13S146Kluyveromyces lactisMutation(s): 0 
Find proteins for Q6CWT9 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 33
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eS31f150Kluyveromyces lactisMutation(s): 0 
Find proteins for P69061 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
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Entity ID: 4
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uS5C259Kluyveromyces lactisMutation(s): 0 
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Entity ID: 1
MoleculeChainsLengthOrganismImage
18S rRNA21799Kluyveromyces lactis
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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a, b, f
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

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2
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.75 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-11-05
    Type: Initial release
  • Version 1.1: 2014-12-24
    Changes: Database references
  • Version 1.2: 2018-07-18
    Changes: Data collection