2NPF

Structure of eEF2 in complex with moriniafungin

Summary for 2NPF

• Entry DOI: 10.2210/pdb2npf/pdb
• Related: 1n0u 2E1R
• Descriptor: Elongation factor 2, (1S,4R,5R,9S,11S)-2-({[(2S,5R,6R,7R,9S,10R)-2-(7-CARBOXYHEPTYL)-6-HYDROXY-10-METHOXY-9-METHYL-3-OXO-1,4,8-TRIOXASPIRO[4 .5]DEC-7-YL]OXY}METHYL)-9-FORMYL-13-ISOPROPYL-5-METHYLTETRACYCLO[7.4.0.02,11.04.8]TRIDEC-12-ENE-1-CARBOXYLIC ACID, GUANOSINE-5'-DIPHOSPHATE (3 entities in total)
• Functional Keywords: protein-inhibitor complex, g-protein, translation
• Biological source: Saccharomyces cerevisiae (baker's yeast)
• Cellular location: Cytoplasm : P32324
• Total number of polymer chains: 2
• Total formula weight: 189082.29

Authors

Soe, R.,Mosley, R.T.,Andersen, G.R. (deposition date: 2006-10-27, release date: 2006-11-14, Last modification date: 2023-10-25)

Primary citation

Soe, R.,Mosley, R.T.,Justice, M.,Nielsen-Kahn, J.,Shastry, M.,Merrill, A.R.,Andersen, G.R.
Sordarin derivatives induce a novel conformation of the yeast ribosome translocation factor eEF2
J.Biol.Chem., 282:657-666, 2007

PubMed Abstract: The sordarins are fungal specific inhibitors of the translation factor eEF2, which catalyzes the translocation of tRNA and mRNA after peptide bond formation. We have determined the crystal structures of eEF2 in complex with two novel sordarin derivatives. In both structures, the three domains of eEF2 that form the ligand-binding pocket are oriented in a different manner relative to the rest of eEF2 compared with our previous structure of eEF2 in complex with the parent natural product sordarin. Yeast eEF2 is also shown to bind adenylic nucleotides, which can be displaced by sordarin, suggesting that ADP or ATP also bind to the three C-terminal domains of eEF2. Fusidic acid is a universal inhibitor of translation that targets EF-G or eEF2 and is widely used as an antibiotic against Gram-positive bacteria. Based on mutations conferring resistance to fusidic acid, cryo-EM reconstructions, and x-ray structures of eEF2, EF-G, and an EF-G homolog, we suggest that the conformation of EF-G stalled on the 70 S ribosome by fusidic acid is similar to that of eEF2 trapped on the 80 S ribosome by sordarin.

PubMed: 17082187
DOI: 10.1074/jbc.M607830200

Experimental method

X-RAY DIFFRACTION (2.9 Å)