4V91

Kluyveromyces lactis 80S ribosome in complex with CrPV-IRES


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 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

Initiation of Translation by Cricket Paralysis Virus Ires Requires its Translocation in the Ribosome.

Fernandez, I.S.Bai, X.Murshudov, G.Scheres, S.H.W.Ramakrishnan, V.

(2014) Cell 157: 823

  • DOI: 10.1016/j.cell.2014.04.015
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The cricket paralysis virus internal ribosome entry site (CrPV-IRES) is a folded structure in a viral mRNA that allows initiation of translation in the absence of any host initiation factors. By using recent advances in single-particle electron cryom ...

    The cricket paralysis virus internal ribosome entry site (CrPV-IRES) is a folded structure in a viral mRNA that allows initiation of translation in the absence of any host initiation factors. By using recent advances in single-particle electron cryomicroscopy, we have solved the structure of CrPV-IRES bound to the ribosome of the yeast Kluyveromyces lactis in both the canonical and rotated states at overall resolutions of 3.7 and 3.8 Å, respectively. In both states, the pseudoknot PKI of the CrPV-IRES mimics a tRNA/mRNA interaction in the decoding center of the A site of the 40S ribosomal subunit. The structure and accompanying factor-binding data show that CrPV-IRES binding mimics a pretranslocation rather than initiation state of the ribosome. Translocation of the IRES by elongation factor 2 (eEF2) is required to bring the first codon of the mRNA into the A site and to allow the start of translation.


    Organizational Affiliation

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



Macromolecules

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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
EL8G256Kluyveromyces lactisMutation(s): 0 
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
UL6H191Kluyveromyces lactisMutation(s): 0 
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
UL16I221Kluyveromyces lactisMutation(s): 0 
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
UL5J174Kluyveromyces lactisMutation(s): 0 
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
EL13L199Kluyveromyces lactisMutation(s): 0 
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
EL14M138Kluyveromyces lactisMutation(s): 0 
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
EL15N204Kluyveromyces lactisMutation(s): 0 
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
UL13O398Kluyveromyces lactisMutation(s): 0 
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
UL22P184Kluyveromyces lactisMutation(s): 0 
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
EL18Q186Kluyveromyces lactisMutation(s): 0 
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
EL19R189Kluyveromyces lactisMutation(s): 0 
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
EL20S172Kluyveromyces lactisMutation(s): 0 
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
EL21T160Kluyveromyces lactisMutation(s): 0 
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
EL22U121Kluyveromyces lactisMutation(s): 0 
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
UL14V137Kluyveromyces lactisMutation(s): 0 
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
EL24W155Kluyveromyces lactisMutation(s): 0 
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
UL23X142Kluyveromyces lactisMutation(s): 0 
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
UL24Y127Kluyveromyces lactisMutation(s): 0 
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
EL27Z136Kluyveromyces lactisMutation(s): 0 
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
UL15a149Kluyveromyces lactisMutation(s): 0 
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
EL29b59Kluyveromyces lactisMutation(s): 0 
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
EL30c105Kluyveromyces lactisMutation(s): 0 
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
EL31d113Kluyveromyces lactisMutation(s): 0 
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
EL32e130Kluyveromyces lactisMutation(s): 0 
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Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
EL33f107Kluyveromyces lactisMutation(s): 0 
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Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
EL34g121Kluyveromyces lactisMutation(s): 0 
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Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
UL29h120Kluyveromyces lactisMutation(s): 0 
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Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
EL36i100Kluyveromyces lactisMutation(s): 0 
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Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
EL37j88Kluyveromyces lactisMutation(s): 0 
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Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
EL38k78Kluyveromyces lactisMutation(s): 0 
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
UL2A254Kluyveromyces lactisMutation(s): 0 
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Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
EL39l51Kluyveromyces lactisMutation(s): 0 
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Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
EL40m128Kluyveromyces lactisMutation(s): 0 
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Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
EL41n25Kluyveromyces lactisMutation(s): 0 
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Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
EL42o106Kluyveromyces lactisMutation(s): 0 
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Entity ID: 44
MoleculeChainsSequence LengthOrganismDetails
EL43p92Kluyveromyces lactisMutation(s): 0 
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Entity ID: 45
MoleculeChainsSequence LengthOrganismDetails
UL1t217Kluyveromyces lactisMutation(s): 0 
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
UL3B387Kluyveromyces lactisMutation(s): 0 
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
UL4C362Kluyveromyces lactisMutation(s): 0 
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
UL18D297Kluyveromyces lactisMutation(s): 0 
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
EL6E176Kluyveromyces lactisMutation(s): 0 
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
UL30F244Kluyveromyces lactisMutation(s): 0 
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Entity ID: 1
MoleculeChainsLengthOrganism
25S RRNA13397Kluyveromyces lactis

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Entity ID: 2
MoleculeChainsLengthOrganism
5S RRNA3121Kluyveromyces lactis

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Entity ID: 3
MoleculeChainsLengthOrganism
5.8S RRNA4158Kluyveromyces lactis
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-07-09
    Type: Initial release
  • Version 1.1: 2014-12-10
    Changes: Other
  • Version 1.2: 2015-04-22
    Changes: Other
  • Version 2.0: 2017-08-02
    Changes: Advisory, Atomic model, Data collection, Derived calculations
  • Version 2.1: 2019-12-11
    Changes: Other