1OLN

Model for thiostrepton antibiotic binding to L11 substrate from 50S ribosomal RNA


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 
  • Selection Criteria: LEAST RESTRAINT VIOLATION AND BEST OVERALL DOCKING SCORE 

wwPDB Validation

Currently 1OLN does not have a wwPDB validation report.


This is version 1.3 of the entry. See complete history

Literature

Structural Basis for Contrasting Activities of Ribosome Binding Thiazole Antibiotics

Lentzen, G.Klinck, R.Matassova, N.Aboul-Ela, F.Murchie, A.I.H.

(2003) Chem.Biol. 10: 769


  • PubMed Abstract: 
  • Thiostrepton and micrococcin inhibit protein synthesis by binding to the L11 binding domain (L11BD) of 23S ribosomal RNA. The two compounds are structurally related, yet they produce different effects on ribosomal RNA in footprinting experiments and ...

    Thiostrepton and micrococcin inhibit protein synthesis by binding to the L11 binding domain (L11BD) of 23S ribosomal RNA. The two compounds are structurally related, yet they produce different effects on ribosomal RNA in footprinting experiments and on elongation factor-G (EF-G)-dependent GTP hydrolysis. Using NMR and an assay based on A1067 methylation by thiostrepton-resistance methyltransferase, we show that the related thiazoles, nosiheptide and siomycin, also bind to this region. The effect of all four antibiotics on EF-G-dependent GTP hydrolysis and EF-G-GDP-ribosome complex formation was studied. Our NMR and biochemical data demonstrate that thiostrepton, nosiheptide, and siomycin share a common profile, which differs from that of micrococcin. We have generated a three-dimensional (3D) model for the interaction of thiostrepton with L11BD RNA. The model rationalizes the differences between micrococcin and the thiostrepton-like antibiotics interacting with L11BD.


    Related Citations: 
    • A Detailed View of a Ribosomal Active Site: The Structure of the L11-RNA Complex
      Wimberly, B.T.,Guymon, R.,Mccutcheon, J.P.,White, S.W.,Ramakrishnan, V.
      (1999) Cell 97: 491
    • Crystal Structure of a Conserved Ribosomal Protein-RNA Complex
      Conn, G.L.,Draper, D.E.,Lattman, E.E.,Gittis, A.G.
      (1999) Science 284: 1171


    Organizational Affiliation

    RiboTargets, Ltd., Granta Park, Abington, CB1 6GB, Cambridge, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
50S RIBOSOMAL PROTEIN L11
A
140Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)Gene Names: rplK
Find proteins for P29395 (Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099))
Go to UniProtKB:  P29395
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
THIOSTREPTON
B
19Streptomyces azureusGene Names: tpdA
Find proteins for P0C8P8 (Streptomyces azureus)
Go to UniProtKB:  P0C8P8
Entity ID: 3
MoleculeChainsLengthOrganism
RNAC58Thermotoga maritima
Small Molecules
Biologically Interesting Molecules 1 Unique
IDChainsNameType/Class2D Diagram3D Interactions
PRD_000223
Query on PRD_000223
BTHIOSTREPTONThiopeptide / Antibiotic

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Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 
  • Selection Criteria: LEAST RESTRAINT VIOLATION AND BEST OVERALL DOCKING SCORE 

Structure Validation

Currently 1OLN does not have a wwPDB validation report.



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-09-11
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Atomic model, Database references, Derived calculations, Structure summary, Version format compliance
  • Version 1.2: 2012-11-30
    Type: Other
  • Version 1.3: 2017-11-15
    Type: Database references