2NOQ

Structure of ribosome-bound cricket paralysis virus IRES RNA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.3 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

Structure of the ribosome-bound cricket paralysis virus IRES RNA.

Schuler, M.Connell, S.R.Lescoute, A.Giesebrecht, J.Dabrowski, M.Schroeer, B.Mielke, T.Penczek, P.A.Westhof, E.Spahn, C.M.

(2006) Nat.Struct.Mol.Biol. 13: 1092-1096

  • DOI: 10.1038/nsmb1177

  • PubMed Abstract: 
  • Internal ribosome entry sites (IRESs) facilitate an alternative, end-independent pathway of translation initiation. A particular family of dicistroviral IRESs can assemble elongation-competent 80S ribosomal complexes in the absence of canonical initi ...

    Internal ribosome entry sites (IRESs) facilitate an alternative, end-independent pathway of translation initiation. A particular family of dicistroviral IRESs can assemble elongation-competent 80S ribosomal complexes in the absence of canonical initiation factors and initiator transfer RNA. We present here a cryo-EM reconstruction of a dicistroviral IRES bound to the 80S ribosome. The resolution of the cryo-EM reconstruction, in the subnanometer range, allowed the molecular structure of the complete IRES in its active, ribosome-bound state to be solved. The structure, harboring three pseudoknot-containing domains, each with a specific functional role, shows how defined elements of the IRES emerge from a compactly folded core and interact with the key ribosomal components that form the A, P and E sites, where tRNAs normally bind. Our results exemplify the molecular strategy for recruitment of an IRES and reveal the dynamic features necessary for internal initiation.


    Organizational Affiliation

    Institut f├╝r Medizinische Physik und Biophysik, Charite-Universit├Ątsmedizin Berlin, Ziegelstrasse 5-9, 10117-Berlin, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S5
F
150Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS5 (RPS2)
Find proteins for P26783 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPS5
Go to UniProtKB:  P26783
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L1
G
213Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL1A (SSM1, SSM1A)
Find proteins for P0CX43 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX43
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L11-B
H
165Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL11B (RP39B, RPL16B)
Find proteins for Q3E757 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q3E757
Entity ID: 1
MoleculeChainsLengthOrganism
CrPV IRESA190N/A
Entity ID: 2
MoleculeChainsLengthOrganism
18S ribosomal RNAB46Saccharomyces cerevisiae
Entity ID: 3
MoleculeChainsLengthOrganism
18S ribosomal RNAC13Saccharomyces cerevisiae
Entity ID: 4
MoleculeChainsLengthOrganism
18S ribosomal RNAD15Saccharomyces cerevisiae
Entity ID: 5
MoleculeChainsLengthOrganism
25S ribosomal RNAE53Saccharomyces cerevisiae
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.3 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-11-21
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2012-02-15
    Type: Atomic model