4FN5

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.202 

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: 10.1371/journal.pone.0042657

  • 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 ...

    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

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Elongation factor G 1
A
709Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)Mutation(s): 0 
Gene Names: fusA (fusA1)
Find proteins for Q9HWD2 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Go to UniProtKB:  Q9HWD2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Argyrin B
B
8N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Modified Residues  6 Unique
IDChainsTypeFormula2D DiagramParent
BB9
Query on BB9
B
PEPTIDE LINKINGC3 H5 N O2 SCYS
SAR
Query on SAR
B
PEPTIDE LINKINGC3 H7 N O2GLY
DBB
Query on DBB
B
D-PEPTIDE LINKINGC4 H9 N O2

--

DAL
Query on DAL
B
D-PEPTIDE LINKINGC3 H7 N O2

--

DHA
Query on DHA
B
PEPTIDE LINKINGC3 H5 N O2SER
0UO
Query on 0UO
B
peptide-likeC12 H14 N2 O3TRP
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.202 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 125.780α = 90.00
b = 88.100β = 107.91
c = 74.320γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
APSdata collection
BUSTERrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

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