4FN5

ELONGATION FACTOR G 1 (PSEUDOMONAS AERUGINOSA) IN COMPLEX WITH Argyrin B

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.207 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history. 


Literature

Identification of elongation factor g as the conserved cellular target of argyrin B.

Nyfeler, B., Hoepfner, D., Palestrant, D., Kirby, C.A., Whitehead, L., Yu, R., Deng, G., Caughlan, R.E., Woods, A.L., Jones, A.K., Barnes, S.W., Walker, J.R., Gaulis, S., Hauy, E., Brachmann, S.M., Krastel, P., Studer, C., Riedl, R., Estoppey, D., Aust, T., Movva, N.R., Wang, Z., Salcius, M., Michaud, G.A., McAllister, G., Murphy, L.O., Tallarico, J.A., Wilson, C.J., Dean, C.R.

(2012) PLoS One 7: e42657-e42657

  • DOI: https://doi.org/10.1371/journal.pone.0042657
  • Primary Citation of Related Structures:  
    4FN5

  • PubMed Abstract: 

    • Argyrins, produced by myxobacteria and actinomycetes, are cyclic octapeptides with antibacterial and antitumor activity. Here, we identify elongation factor G (EF-G) as the cellular target of argyrin B in bacteria, via resistant mutant selection and whole genome sequencing, biophysical binding studies and crystallography ...

    Argyrins, produced by myxobacteria and actinomycetes, are cyclic octapeptides with antibacterial and antitumor activity. Here, we identify elongation factor G (EF-G) as the cellular target of argyrin B in bacteria, via resistant mutant selection and whole genome sequencing, biophysical binding studies and crystallography. Argyrin B binds a novel allosteric pocket in EF-G, distinct from the known EF-G inhibitor antibiotic fusidic acid, revealing a new mode of protein synthesis inhibition. In eukaryotic cells, argyrin B was found to target mitochondrial elongation factor G1 (EF-G1), the closest homologue of bacterial EF-G. By blocking mitochondrial translation, argyrin B depletes electron transport components and inhibits the growth of yeast and tumor cells. Further supporting direct inhibition of EF-G1, expression of an argyrin B-binding deficient EF-G1 L693Q variant partially rescued argyrin B-sensitivity in tumor cells. In summary, we show that argyrin B is an antibacterial and cytotoxic agent that inhibits the evolutionarily conserved target EF-G, blocking protein synthesis in bacteria and mitochondrial translation in yeast and mammalian cells.

    Organizational Affiliation: 

    Developmental and Molecular Pathways, Novartis Institutes for BioMedical Research, Cambridge, Massachussetts, United States of America.



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Elongation factor G 1709Pseudomonas aeruginosa PAO1Mutation(s): 0 
Gene Names: fusA, fusA1, PA4266
UniProt
Find proteins for Q9HWD2 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore Q9HWD2 
Go to UniProtKB:  Q9HWD2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HWD2
Protein Feature View
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Argyrin B8Actinoplanes sp.Mutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Modified Residues  4 Unique
IDChainsTypeFormula2D DiagramParent
0UO
Query on 0UO
B
PEPTIDE-LIKEC12 H14 N2 O3TRP
BB9
Query on BB9
B
PEPTIDE LINKINGC3 H5 N O2 SCYS
DHA
Query on DHA
B
PEPTIDE LINKINGC3 H5 N O2SER
SAR
Query on SAR
B
PEPTIDE LINKINGC3 H7 N O2GLY
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.207 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 125.78α = 90
b = 88.1β = 107.91
c = 74.32γ = 90
Software Package:
Software NamePurpose
APSdata collection
PHASERphasing
BUSTERrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-09-26
    Type: Initial release