Terpene Chain Length Affects the Base Pairing Discrimination of
Biochemistry
Molecular Structure
Structural Biology
Journal
iScience
ISSN: 2589-0042
Titre abrégé: iScience
Pays: United States
ID NLM: 101724038
Informations de publication
Date de publication:
18 Dec 2020
18 Dec 2020
Historique:
received:
02
07
2020
revised:
16
10
2020
accepted:
20
11
2020
entrez:
15
12
2020
pubmed:
16
12
2020
medline:
16
12
2020
Statut:
epublish
Résumé
Geranylation is a hydrophobic modification discovered in several bacteria tRNAs with the function of promoting codon bias during translation. However, why nature selects this C10-geranyl group remains a question. We conduct synthesis, UV-thermal denaturation, and molecular simulation studies in RNA duplexes and reveal possible reasons behind this natural selection. Among methyl-(C1), dimethylallyl-(C5), geranyl-(C10), and farnesyl-(C15) modified 2-thiouridines, only geranyl-group promotes U:G over U:A pair. Molecular simulation shows all the modified terpene groups point to the minor groove of RNA duplexes. The discrimination between U:G and U:A pairs derives from the difference in hydrogen bonding and interactions of the chain with the hydrophobic area in the minor groove. Geranyl group has perfect length to discriminate U:G and U:A pairs, whereas the others are either too long or too short to achieve the same behavior. This work indicates that geranyl group cannot be replaced by other terpene groups in promoting codon-specificity.
Identifiants
pubmed: 33319183
doi: 10.1016/j.isci.2020.101866
pii: S2589-0042(20)31063-4
pmc: PMC7726334
doi:
Types de publication
Journal Article
Langues
eng
Pagination
101866Subventions
Organisme : NIGMS NIH HHS
ID : R35 GM133469
Pays : United States
Informations de copyright
© 2020 The Author(s).
Déclaration de conflit d'intérêts
All authors declare no conflict of interest.
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