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TitleStructural basis of translation inhibition by a valine tRNA-derived fragment.
Journal, issue, pagesLife Sci Alliance, Vol. 7, Issue 6, Year 2024
Publish dateApr 10, 2024
AuthorsYun Wu / Meng-Ting Ni / Ying-Hui Wang / Chen Wang / Hai Hou / Xing Zhang / Jie Zhou /
PubMed AbstractTranslational regulation by non-coding RNAs is a mechanism commonly used by cells to fine-tune gene expression. A fragment derived from an archaeal valine tRNA (Val-tRF) has been previously ...Translational regulation by non-coding RNAs is a mechanism commonly used by cells to fine-tune gene expression. A fragment derived from an archaeal valine tRNA (Val-tRF) has been previously identified to bind the small subunit of the ribosome and inhibit translation in Here, we present three cryo-electron microscopy structures of Val-tRF bound to the small subunit of ribosomes at resolutions between 4.02 and 4.53 Å. Within these complexes, Val-tRF was observed to bind to conserved RNA-interacting sites, including the ribosomal decoding center. The binding of Val-tRF destabilizes helices h24, h44, and h45 and the anti-Shine-Dalgarno sequence of 16S rRNA. The binding position of this molecule partially overlaps with the translation initiation factor aIF1A and occludes the mRNA P-site codon. Moreover, we found that the binding of Val-tRF is associated with steric hindrance of the H69 base of 23S rRNA in the large ribosome subunit, thereby preventing 70S assembly. Our data exemplify how tRNA-derived fragments bind to ribosomes and provide new insights into the mechanisms underlying translation inhibition by Val-tRFs.
External linksLife Sci Alliance / PubMed:38599770 / PubMed Central
MethodsEM (single particle)
Resolution4.1 - 4.62 Å
Structure data

37604

8wkp

EMDB-37604, PDB-8wkp:
Structural basis of translation inhibition by a valine tRNA-derived fragment
Method: EM (single particle) / Resolution: 4.62 Å

37733

8wq2

EMDB-37733, PDB-8wq2:
Structural basis of translation inhibition by a valine tRNA-derived fragment
Method: EM (single particle) / Resolution: 4.1 Å

37734

8wq4

EMDB-37734, PDB-8wq4:
Structural basis of translation inhibition by a valine tRNA-derived fragment
Method: EM (single particle) / Resolution: 4.53 Å

Chemicals

ChemComp-UNK:
UNKNOWN

Source
  • sulfolobus acidocaldarius dsm 639 (acidophilic)
  • haloferax volcanii (archaea)
KeywordsRIBOSOME / Sulfolobus acidocaldarius ribosome

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