Anticodon Loop GC Content as a Potential Modulator of Collective Low-Frequency Dynamics in tRNA: A Short Hypothesis and Elastic Toy Model

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Authors: Marcin Rutowski
Cited by: 0

Abstract

I propose a physically motivated and explicitly falsifiable hypothesis suggesting that GC content within the tRNA anticodon loop may modulate collective low-frequency dynamics. The hypothesis is based on two general considerations: (i) collective vibrational modes depend on effective elastic properties rather than solely on atomic mass distribution, and (ii) GC-rich nucleotide sequences exhibit stronger base-stacking interactions, potentially increasing local mechanical stiffness even in nominally unpaired regions. I introduce a minimal elastic toy model demonstrating how regional stiffness variations may shift collective mode frequencies without requiring global structural changes. Computational and experimental strategies capable of testing the hypothesis are outlined. This work presents a theoretical framework intended to generate testable predictions rather than to report completed simulations.

Fields of Study & Subjects

RNA and protein synthesis mechanisms DNA and Nucleic Acid Chemistry Protein Structure and Dynamics

Publication details

Journal / source
Zenodo (CERN European Organization for Nuclear Research)
Publication date
1 March 2026
Language
EN
Document type
Preprint