6SPE

Pseudomonas aeruginosa 30s ribosome from a clinical isolate


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.2 of the entry. See complete history


Literature

Structure ofPseudomonas aeruginosaribosomes from an aminoglycoside-resistant clinical isolate.

Halfon, Y.Jimenez-Fernandez, A.La Rosa, R.Espinosa Portero, R.Krogh Johansen, H.Matzov, D.Eyal, Z.Bashan, A.Zimmerman, E.Belousoff, M.Molin, S.Yonath, A.

(2019) Proc Natl Acad Sci U S A 116: 22275-22281

  • DOI: https://doi.org/10.1073/pnas.1909831116
  • Primary Citation of Related Structures:  
    6SPB, 6SPC, 6SPD, 6SPE, 6SPF, 6SPG

  • PubMed Abstract: 

    Resistance to antibiotics has become a major threat to modern medicine. The ribosome plays a fundamental role in cell vitality by the translation of the genetic code into proteins; hence, it is a major target for clinically useful antibiotics. We report here the cryo-electron microscopy structures of the ribosome of a pathogenic aminoglycoside (AG)-resistant Pseudomonas aeruginosa strain, as well as of a nonresistance strain isolated from a cystic fibrosis patient. The structural studies disclosed defective ribosome complex formation due to a conformational change of rRNA helix H69, an essential intersubunit bridge, and a secondary binding site of the AGs. In addition, a stable conformation of nucleotides A1486 and A1487, pointing into helix h44, is created compared to a non-AG-bound ribosome. We suggest that altering the conformations of ribosomal protein uL6 and rRNA helix H69, which interact with initiation-factor IF2, interferes with proper protein synthesis initiation.


  • Organizational Affiliation

    Department of Structural Biology, The Weizmann Institute of Science, 7610001 Rehovot, Israel.


Macromolecules

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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S2B [auth b]239Pseudomonas aeruginosaMutation(s): 0 
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UniProt GroupA0A072ZPV8
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S3C [auth c]205Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A140S919 (Pseudomonas aeruginosa)
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S4D [auth d]205Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A072ZDF7 (Pseudomonas aeruginosa)
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S5E [auth e]156Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A241XG65 (Pseudomonas aeruginosa)
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S6F [auth f]105Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A069Q263 (Pseudomonas aeruginosa)
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S7G [auth g]154Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A2V3F2U6 (Pseudomonas aeruginosa)
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S8H [auth h]129Pseudomonas aeruginosaMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S9I [auth i]126Pseudomonas aeruginosaMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S10J [auth j]96Pseudomonas aeruginosaMutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S11K [auth k]115Pseudomonas aeruginosaMutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S12L [auth l]121Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A071L394 (Pseudomonas aeruginosa)
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S13M [auth m]110Pseudomonas aeruginosaMutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S14N [auth n]98Pseudomonas aeruginosaMutation(s): 0 
UniProt
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S15O [auth o]86Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A071L3R7 (Pseudomonas aeruginosa)
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S16P [auth p]78Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A2V4FRZ2 (Pseudomonas aeruginosa)
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S17Q [auth q]76Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for E2RXT5 (Pseudomonas aeruginosa)
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S18R [auth r]71Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A2V3DLV3 (Pseudomonas aeruginosa)
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S19S [auth s]80Pseudomonas aeruginosaMutation(s): 0 
UniProt
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S20T [auth t]85Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A072ZDZ9 (Pseudomonas aeruginosa)
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S21U [auth u]63Pseudomonas aeruginosaMutation(s): 0 
UniProt
Find proteins for A0A069QC99 (Pseudomonas aeruginosa)
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Entity ID: 1
MoleculeChains LengthOrganismImage
16S ribosomal RNAA [auth a]1,526Pseudomonas aeruginosa
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Danish Council for Independent ResearchDenmarkDFF-4181-00115
Novo Nordisk FoundationDenmark--
European Research Council322581
European UnioniNEXT, project number 653706, funded by the Horizon 2020 programme of the European Union

Revision History  (Full details and data files)

  • Version 1.0: 2019-10-16
    Type: Initial release
  • Version 1.1: 2019-10-23
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-06
    Changes: Data collection, Database references