4GKK

Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human mitochondrial anticodon stem loop (ASL) of transfer RNA Methionine (TRNAMET) bound to an mRNA with an AUA-codon in the A-site and paromomycin

4GKK の概要

• エントリーDOI: 10.2210/pdb4gkk/pdb
• 関連するPDBエントリー: 2KRY 2UUC 3T1Y
• 分子名称: 16S rRNA, 30S ribosomal protein S10, 30S ribosomal protein S11, ... (26 entities in total)
• 機能のキーワード: translation initiation, 5-formylcytidine, ribosome-antibiotic complex, ribosome/antibiotic
• 由来する生物種: Thermus thermophilus; 詳細
• タンパク質・核酸の鎖数: 23
• 化学式量合計: 777309.73

構造登録者

Cantara, W.A.,Murphy IV, F.V.,Spears, J.L.,Demirci, H.,Agris, P.F. (登録日: 2012-08-11, 公開日: 2013-06-05, 最終更新日: 2024-02-28)

主引用文献

Cantara, W.A.,Murphy, F.V.,Demirci, H.,Agris, P.F.
Expanded use of sense codons is regulated by modified cytidines in tRNA.
Proc.Natl.Acad.Sci.USA, 110:10964-10969, 2013

PubMed Abstract: Codon use among the three domains of life is not confined to the universal genetic code. With only 22 tRNA genes in mammalian mitochondria, exceptions from the universal code are necessary for proper translation. A particularly interesting deviation is the decoding of the isoleucine AUA codon as methionine by the one mitochondrial-encoded tRNA(Met). This tRNA decodes AUA and AUG in both the A- and P-sites of the metazoan mitochondrial ribosome. Enrichment of posttranscriptional modifications is a commonly appropriated mechanism for modulating decoding rules, enabling some tRNA functions while restraining others. In this case, a modification of cytidine, 5-formylcytidine (f(5)C), at the wobble position-34 of human mitochondrial tRNA(f5CAU)(Met) (hmtRNA(f5CAU)(Met)) enables expanded decoding of AUA, resulting in a deviation in the genetic code. Visualization of the codon•anticodon interaction by X-ray crystallography revealed that recognition of both A and G at the third position of the codon occurs in the canonical Watson-Crick geometry. A modification-dependent shift in the tautomeric equilibrium toward the rare imino-oxo tautomer of cytidine stabilizes the f(5)C34•A base pair geometry with two hydrogen bonds.

PubMed: 23781103
DOI: 10.1073/pnas.1222641110

実験手法

X-RAY DIFFRACTION (3.2 Å)