8Y0W

dormant ribosome with eIF5A, eEF2 and SERBP1

This is a non-PDB format compatible entry.

Summary for 8Y0W

• Entry DOI: 10.2210/pdb8y0w/pdb
• EMDB information: 37991
• Descriptor: Eukaryotic translation initiation factor 5A-1, 60S ribosomal protein L6, 60S ribosomal protein L7, ... (83 entities in total)
• Functional Keywords: dormant ribosome, serbp1, ribosome
• Biological source: Homo sapiens (human); More
• Total number of polymer chains: 81
• Total formula weight: 3935018.39

Authors

Du, M.,Zeng, F. (deposition date: 2024-01-23, release date: 2024-02-07, Last modification date: 2024-11-13)

Primary citation

Du, M.,Li, X.,Dong, W.,Zeng, F.
Implication of Stm1 in the protection of eIF5A, eEF2 and tRNA through dormant ribosomes.
Front Mol Biosci, 11:1395220-1395220, 2024

PubMed Abstract: Dormant ribosomes are typically associated with preservation factors to protect themselves from degradation under stress conditions. Stm1/SERBP1 is one such protein that anchors the 40S and 60S subunits together. Several proteins and tRNAs bind to this complex as well, yet the molecular mechanisms remain unclear. Here, we reported the cryo-EM structures of five newly identified Stm1/SERBP1-bound ribosomes. These structures highlighted that eIF5A, eEF2, and tRNA might bind to dormant ribosomes under stress to avoid their own degradation, thus facilitating protein synthesis upon the restoration of growth conditions. In addition, Ribo-seq data analysis reflected the upregulation of nutrient, metabolism, and external-stimulus-related pathways in the strain, suggesting possible regulatory roles of Stm1. The knowledge generated from the present work will facilitate in better understanding the molecular mechanism of dormant ribosomes.

PubMed: 38698775
DOI: 10.3389/fmolb.2024.1395220

Experimental method

ELECTRON MICROSCOPY (3.4 Å)