3BBX

The Hsp15 protein fitted into the low resolution Cryo-EM map of the 50S.nc-tRNA.Hsp15 complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 10.0 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

Recycling of Aborted Ribosomal 50S Subunit-Nascent Chain-tRNA Complexes by the Heat Shock Protein Hsp15.

Jiang, L.Schaffitzel, C.Bingel-Erlenmeyer, R.Ban, N.Korber, P.Koning, R.I.de Geus, D.C.Plaisier, J.R.Abrahams, J.P.

(2009) J Mol Biol 386: 1357-1367

  • DOI: 10.1016/j.jmb.2008.10.079
  • Primary Citation of Related Structures:  
    3BBU, 3BBV, 3BBX

  • PubMed Abstract: 
  • When heat shock prematurely dissociates a translating bacterial ribosome, its 50S subunit is prevented from reinitiating protein synthesis by tRNA covalently linked to the unfinished protein chain that remains threaded through the exit tunnel. Hsp15, a highly upregulated bacterial heat shock protein, reactivates such dead-end complexes ...

    When heat shock prematurely dissociates a translating bacterial ribosome, its 50S subunit is prevented from reinitiating protein synthesis by tRNA covalently linked to the unfinished protein chain that remains threaded through the exit tunnel. Hsp15, a highly upregulated bacterial heat shock protein, reactivates such dead-end complexes. Here, we show with cryo-electron microscopy reconstructions and functional assays that Hsp15 translocates the tRNA moiety from the A site to the P site of stalled 50S subunits. By stabilizing the tRNA in the P site, Hsp15 indirectly frees up the A site, allowing a release factor to land there and cleave off the tRNA. Such a release factor must be stop codon independent, suggesting a possible role for a poorly characterized class of putative release factors that are upregulated by cellular stress, lack a codon recognition domain and are conserved in eukaryotes.


    Organizational Affiliation

    Department of Biophysical Structural Chemistry, Leiden Institute of Chemistry, Leiden University, Einsteinweg 55, 2333 CC Leiden, The Netherlands.



Macromolecules

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L25C [auth V]94Escherichia coliMutation(s): 0 
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Entity ID: 4
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50S ribosomal protein L2D [auth C]273Escherichia coliMutation(s): 0 
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Entity ID: 5
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50S ribosomal protein L3E [auth D]209Escherichia coliMutation(s): 0 
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Entity ID: 6
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50S ribosomal protein L4F [auth E]201Escherichia coliMutation(s): 0 
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Entity ID: 7
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50S ribosomal protein L5G [auth F]178Escherichia coliMutation(s): 0 
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Entity ID: 8
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50S ribosomal protein L6H [auth G]176Escherichia coliMutation(s): 0 
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Entity ID: 9
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50S ribosomal protein L9I [auth H]149Escherichia coliMutation(s): 0 
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Entity ID: 10
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50S ribosomal protein L13J142Escherichia coliMutation(s): 0 
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Entity ID: 11
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50S ribosomal protein L14K123Escherichia coliMutation(s): 0 
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Entity ID: 12
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50S ribosomal protein L15L144Escherichia coliMutation(s): 0 
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Entity ID: 13
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50S ribosomal protein L16M136Escherichia coliMutation(s): 0 
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Entity ID: 14
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50S ribosomal protein L17N127Escherichia coliMutation(s): 0 
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Entity ID: 15
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50S ribosomal protein L18O117Escherichia coliMutation(s): 0 
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Entity ID: 16
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50S ribosomal protein L19P114Escherichia coliMutation(s): 0 
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Entity ID: 17
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50S ribosomal protein L20Q117Escherichia coliMutation(s): 0 
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Entity ID: 18
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50S ribosomal protein L21R103Escherichia coliMutation(s): 0 
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Entity ID: 19
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50S ribosomal protein L22S110Escherichia coliMutation(s): 0 
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Entity ID: 20
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50S ribosomal protein L23T100Escherichia coliMutation(s): 0 
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Entity ID: 21
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50S ribosomal protein L24U103Escherichia coliMutation(s): 0 
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Entity ID: 22
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50S ribosomal protein L27V [auth W]84Escherichia coliMutation(s): 0 
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50S ribosomal protein L29W [auth X]63Escherichia coliMutation(s): 0 
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Entity ID: 24
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50S ribosomal protein L30X [auth Y]58Escherichia coliMutation(s): 0 
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Entity ID: 25
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50S ribosomal protein L31Y [auth Z]70Escherichia coliMutation(s): 0 
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Entity ID: 26
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50S ribosomal protein L32Z [auth 0]56Escherichia coliMutation(s): 0 
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Entity ID: 27
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50S ribosomal protein L33AA [auth 1]54Escherichia coliMutation(s): 0 
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Entity ID: 28
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50S ribosomal protein L34BA [auth 2]46Escherichia coliMutation(s): 0 
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Entity ID: 29
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50S ribosomal protein L35CA [auth 3]64Escherichia coliMutation(s): 0 
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50S ribosomal protein L36DA [auth 4]38Escherichia coliMutation(s): 0 
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Entity ID: 1
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5S ribosomal RNAA120Escherichia coli
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Entity ID: 2
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23S ribosomal RNAB2904Escherichia coli
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Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download Ideal Coordinates CCD File 
AB [auth B] , AC [auth B] , AD [auth B] , AE [auth Q] , BB [auth B] , BC [auth B] , BD [auth B] , BE [auth Q] , 
AB [auth B],  AC [auth B],  AD [auth B],  AE [auth Q],  BB [auth B],  BC [auth B],  BD [auth B],  BE [auth Q],  CB [auth B],  CC [auth B],  CD [auth B],  CE [auth S],  DB [auth B],  DC [auth B],  DD [auth B],  DE [auth S],  EA [auth B],  EB [auth B],  EC [auth B],  ED [auth B],  EE [auth T],  FA [auth B],  FB [auth B],  FC [auth B],  FD [auth B],  FE [auth T],  GA [auth B],  GB [auth B],  GC [auth B],  GD [auth B],  GE [auth U],  HA [auth B],  HB [auth B],  HC [auth B],  HD [auth B],  HE [auth 2],  IA [auth B],  IB [auth B],  IC [auth B],  ID [auth B],  IE [auth 2],  JA [auth B],  JB [auth B],  JC [auth B],  JD [auth B],  JE [auth 2],  KA [auth B],  KB [auth B],  KC [auth B],  KD [auth B],  LA [auth B],  LB [auth B],  LC [auth B],  LD [auth B],  MA [auth B],  MB [auth B],  MC [auth B],  MD [auth B],  NA [auth B],  NB [auth B],  NC [auth B],  ND [auth B],  OA [auth B],  OB [auth B],  OC [auth B],  OD [auth B],  PA [auth B],  PB [auth B],  PC [auth B],  PD [auth B],  QA [auth B],  QB [auth B],  QC [auth B],  QD [auth B],  RA [auth B],  RB [auth B],  RC [auth B],  RD [auth B],  SA [auth B],  SB [auth B],  SC [auth B],  SD [auth C],  TA [auth B],  TB [auth B],  TC [auth B],  TD [auth E],  UA [auth B],  UB [auth B],  UC [auth B],  UD [auth E],  VA [auth B],  VB [auth B],  VC [auth B],  VD [auth E],  WA [auth B],  WB [auth B],  WC [auth B],  WD [auth L],  XA [auth B],  XB [auth B],  XC [auth B],  XD [auth L],  YA [auth B],  YB [auth B],  YC [auth B],  YD [auth L],  ZA [auth B],  ZB [auth B],  ZC [auth B],  ZD [auth L]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 10.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-10-21
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2018-07-18
    Changes: Data collection