6O9J

70S Elongation Competent Ribosome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 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

Late steps in bacterial translation initiation visualized using time-resolved cryo-EM.

Kaledhonkar, S.Fu, Z.Caban, K.Li, W.Chen, B.Sun, M.Gonzalez Jr., R.L.Frank, J.

(2019) Nature 570: 400-404

  • DOI: 10.1038/s41586-019-1249-5
  • Primary Citation of Related Structures:  
    6O7K, 6O9J, 6O9K

  • PubMed Abstract: 
  • The initiation of bacterial translation involves the tightly regulated joining of the 50S ribosomal subunit to an initiator transfer RNA (fMet-tRNA fMet )-containing 30S ribosomal initiation complex to form a 70S initiation complex, which subsequently matures into a 70S elongation-competent complex ...

    The initiation of bacterial translation involves the tightly regulated joining of the 50S ribosomal subunit to an initiator transfer RNA (fMet-tRNA fMet )-containing 30S ribosomal initiation complex to form a 70S initiation complex, which subsequently matures into a 70S elongation-competent complex. Rapid and accurate formation of the 70S initiation complex is promoted by initiation factors, which must dissociate from the 30S initiation complex before the resulting 70S elongation-competent complex can begin the elongation of translation 1 . Although comparisons of the structures of the 30S 2-5 and 70S 4,6-8 initiation complexes have revealed that the ribosome, initiation factors and fMet-tRNA fMet can acquire different conformations in these complexes, the timing of conformational changes during formation of the 70S initiation complex, the structures of any intermediates formed during these rearrangements, and the contributions that these dynamics might make to the mechanism and regulation of initiation remain unknown. Moreover, the absence of a structure of the 70S elongation-competent complex formed via an initiation-factor-catalysed reaction has precluded an understanding of the rearrangements to the ribosome, initiation factors and fMet-tRNA fMet that occur during maturation of a 70S initiation complex into a 70S elongation-competent complex. Here, using time-resolved cryogenic electron microscopy 9 , we report the near-atomic-resolution view of how a time-ordered series of conformational changes drive and regulate subunit joining, initiation factor dissociation and fMet-tRNA fMet positioning during formation of the 70S elongation-competent complex. Our results demonstrate the power of time-resolved cryogenic electron microscopy to determine how a time-ordered series of conformational changes contribute to the mechanism and regulation of one of the most fundamental processes in biology.


    Organizational Affiliation

    Department of Biological Sciences, Columbia University, New York, NY, USA. jf2192@cumc.columbia.edu.



Macromolecules

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Entity ID: 3
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50S ribosomal protein L25C [auth V]94Escherichia coliMutation(s): 0 
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50S ribosomal protein L2D [auth C]267Escherichia coliMutation(s): 0 
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50S ribosomal protein L3E [auth D]209Escherichia coliMutation(s): 0 
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50S ribosomal protein L4F [auth E]201Escherichia coliMutation(s): 0 
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50S ribosomal protein L5G [auth F]178Escherichia coliMutation(s): 0 
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50S ribosomal protein L6H [auth G]176Escherichia coliMutation(s): 0 
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50S ribosomal protein L9I [auth H]149Escherichia coliMutation(s): 0 
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50S ribosomal protein L13J140Escherichia coliMutation(s): 0 
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50S ribosomal protein L14K121Escherichia coliMutation(s): 0 
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50S ribosomal protein L15L144Escherichia coliMutation(s): 0 
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50S ribosomal protein L16M136Escherichia coliMutation(s): 0 
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50S ribosomal protein L17N127Escherichia coliMutation(s): 0 
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50S ribosomal protein L18O117Escherichia coliMutation(s): 0 
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50S ribosomal protein L19P114Escherichia coliMutation(s): 0 
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50S ribosomal protein L20Q117Escherichia coliMutation(s): 0 
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50S ribosomal protein L21R103Escherichia coliMutation(s): 0 
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50S ribosomal protein L22S110Escherichia coliMutation(s): 0 
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50S ribosomal protein L23T99Escherichia coliMutation(s): 0 
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50S ribosomal protein L24U102Escherichia coliMutation(s): 0 
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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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50S ribosomal protein L30X [auth Y]58Escherichia coliMutation(s): 0 
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50S ribosomal protein L31Y [auth Z]70Escherichia coliMutation(s): 0 
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50S ribosomal protein L32Z [auth 1]56Escherichia coliMutation(s): 0 
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50S ribosomal protein L33AA [auth 2]54Escherichia coliMutation(s): 0 
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50S ribosomal protein L34BA [auth 3]46Escherichia coliMutation(s): 0 
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50S ribosomal protein L35CA [auth 4]64Escherichia coliMutation(s): 0 
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50S ribosomal protein L36DA [auth 5]38Escherichia coliMutation(s): 0 
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50S ribosomal protein L11EA [auth 6]141Escherichia coliMutation(s): 0 
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30S ribosomal protein S3GA [auth c]206Escherichia coliMutation(s): 0 
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30S ribosomal protein S4HA [auth d]205Escherichia coliMutation(s): 0 
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30S ribosomal protein S5IA [auth e]150Escherichia coliMutation(s): 0 
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30S ribosomal protein S6JA [auth f]100Escherichia coliMutation(s): 0 
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30S ribosomal protein S7KA [auth g]150Escherichia coliMutation(s): 0 
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30S ribosomal protein S8LA [auth h]129Escherichia coliMutation(s): 0 
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30S ribosomal protein S9MA [auth i]127Escherichia coliMutation(s): 0 
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30S ribosomal protein S10NA [auth j]98Escherichia coliMutation(s): 0 
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30S ribosomal protein S11OA [auth k]117Escherichia coliMutation(s): 0 
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30S ribosomal protein S12PA [auth l]123Escherichia coliMutation(s): 0 
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30S ribosomal protein S13QA [auth m]114Escherichia coliMutation(s): 0 
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30S ribosomal protein S14RA [auth n]100Escherichia coliMutation(s): 0 
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30S ribosomal protein S15SA [auth o]88Escherichia coliMutation(s): 0 
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30S ribosomal protein S16TA [auth p]82Escherichia coliMutation(s): 0 
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30S ribosomal protein S17UA [auth q]80Escherichia coliMutation(s): 0 
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30S ribosomal protein S18VA [auth r]55Escherichia coliMutation(s): 0 
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30S ribosomal protein S19WA [auth s]79Escherichia coliMutation(s): 0 
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Go to UniProtKB:  P0A7U3
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UniProt GroupP0A7U3
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Entity ID: 50
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S20XA [auth t]85Escherichia coliMutation(s): 0 
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Find proteins for P0A7U7 (Escherichia coli (strain K12))
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UniProt GroupP0A7U7
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Entity ID: 51
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S2YA [auth 7]218Escherichia coliMutation(s): 0 
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Find proteins for P0A7V0 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0A7V0
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UniProt GroupP0A7V0
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Entity ID: 52
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S21ZA [auth u]51Escherichia coliMutation(s): 0 
UniProt
Find proteins for P68679 (Escherichia coli (strain K12))
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Go to UniProtKB:  P68679
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UniProt GroupP68679
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Entity ID: 1
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5S rRNAA 117Escherichia coli
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Entity ID: 2
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23S rRNAB 2841Escherichia coli
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Entity ID: 32
MoleculeChainsLengthOrganismImage
16S rRNAFA [auth a]1530Escherichia coli
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Entity ID: 53
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P-tRNAAB [auth v]76Escherichia coli
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)United StatesR01 GM29169
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)United StatesR01 GM55440
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)United StatesR01 GM 084288
American Cancer SocietyUnited States125201

Revision History  (Full details and data files)

  • Version 1.0: 2019-05-29
    Type: Initial release
  • Version 1.1: 2019-07-03
    Changes: Data collection, Database references
  • Version 1.2: 2019-12-18
    Changes: Author supporting evidence