Carregant...
Fitxers
Tipus de document
ArticleVersió
Versió publicadaData de publicació
Llicència de publicació
Si us plau utilitzeu sempre aquest identificador per citar o enllaçar aquest document: https://hdl.handle.net/2445/182680
Cooperativity-Dependent Folding of Single-Stranded DNA
Títol de la revista
Director/Tutor
ISSN de la revista
Títol del volum
Recurs relacionat
Resum
The folding of biological macromolecules is a fundamental process of which we lack a full comprehension. Mostly studied in proteins and RNA, single-stranded DNA (ssDNA) also folds, at physiological salt conditions, by forming nonspecific secondary structures that are difficult to characterize with biophysical techniques. Here, we present a helix-coil model for secondary-structure formation, where ssDNA bases are organized in two different types of domains (compact and free). The model contains two parameters: the energy gain per base in a compact domain, ε , and the cooperativity related to the interfacial energy between different domains, γ . We test the ability of the model to quantify the formation of secondary structure in ssDNA molecules mechanically stretched with optical tweezers. The model reproduces the experimental force-extension curves in ssDNA of different molecular lengths and varying sodium and magnesium concentrations. Salt-correction effects for the energy of compact domains and the interfacial energy are found to be compatible with those of DNA hybridization. The model also predicts the folding free energy and the average size of domains at zero force, finding good agreement with secondary-structure predictions by mfold. We envision the model could be further extended to investigate native folding in RNA and proteins
Matèries
Matèries (anglès)
Citació
Citació
VIADER-GODOY, Xavier, PULIDO, C. r., IBARRA, B., MAÑOSAS CASTEJÓN, María, RITORT FARRAN, Fèlix. Cooperativity-Dependent Folding of Single-Stranded DNA. _Physical Review X_. 2021. Vol. 11, núm. 3, pàgs. 031037. [consulta: 29 de gener de 2026]. ISSN: 2160-3308. [Disponible a: https://hdl.handle.net/2445/182680]