6S47

Saccharomyces cerevisiae 80S ribosome bound with ABCF protein New1

This is a non-PDB format compatible entry.

Summary for 6S47

• Entry DOI: 10.2210/pdb6s47/pdb
• EMDB information: 10098
• Descriptor: 28S ribosomal RNA, 60S ribosomal protein L8-A, 60S ribosomal protein L9-A, ... (80 entities in total)
• Functional Keywords: new1, abcf, ribosomal protein, recycling, termination, translation
• Biological source: Saccharomyces cerevisiae (Baker's yeast); More
• Total number of polymer chains: 79
• Total formula weight: 3095314.83

Authors

Kasari, V.,Pochopien, A.A.,Margus, T.,Murina, V.,Turnbull, K.,Zhou, Y.,Nissan, T.,Graf, M.,Novacek, J.,Atkinson, G.C.,Johansson, M.J.O.,Wilson, D.N.,Hauryliuk, V. (deposition date: 2019-06-26, release date: 2019-07-24, Last modification date: 2025-04-09)

Primary citation

Kasari, V.,Pochopien, A.A.,Margus, T.,Murina, V.,Turnbull, K.,Zhou, Y.,Nissan, T.,Graf, M.,Novacek, J.,Atkinson, G.C.,Johansson, M.J.O.,Wilson, D.N.,Hauryliuk, V.
A role for the Saccharomyces cerevisiae ABCF protein New1 in translation termination/recycling.
Nucleic Acids Res., 47:8807-8820, 2019

PubMed Abstract: Translation is controlled by numerous accessory proteins and translation factors. In the yeast Saccharomyces cerevisiae, translation elongation requires an essential elongation factor, the ABCF ATPase eEF3. A closely related protein, New1, is encoded by a non-essential gene with cold sensitivity and ribosome assembly defect knock-out phenotypes. Since the exact molecular function of New1 is unknown, it is unclear if the ribosome assembly defect is direct, i.e. New1 is a bona fide assembly factor, or indirect, for instance due to a defect in protein synthesis. To investigate this, we employed yeast genetics, cryo-electron microscopy (cryo-EM) and ribosome profiling (Ribo-Seq) to interrogate the molecular function of New1. Overexpression of New1 rescues the inviability of a yeast strain lacking the otherwise strictly essential translation factor eEF3. The structure of the ATPase-deficient (EQ2) New1 mutant locked on the 80S ribosome reveals that New1 binds analogously to the ribosome as eEF3. Finally, Ribo-Seq analysis revealed that loss of New1 leads to ribosome queuing upstream of 3'-terminal lysine and arginine codons, including those genes encoding proteins of the cytoplasmic translational machinery. Our results suggest that New1 is a translation factor that fine-tunes the efficiency of translation termination or ribosome recycling.

PubMed: 31299085
DOI: 10.1093/nar/gkz600

Experimental method

ELECTRON MICROSCOPY (3.28 Å)