RNA Polymerase and Transcription Mechanisms: The Forefront of Physicochemical Studies of Chemical Reactions.
Biomolecules
; 11(1)2020 12 29.
Article
em En
| MEDLINE
| ID: mdl-33383858
The study of transcription and its regulation is an interdisciplinary field that is closely connected with genetics, structural biology, and reaction theory. Among these, although less attention has been paid to reaction theory, it is becoming increasingly useful for research on transcription. Rate equations are commonly used to describe reactions involved in transcription, but they tend to be used unaware of the timescales of relevant physical processes. In this review, we discuss the limitation of rate equation for describing three-dimensional diffusion and one-dimensional diffusion along DNA. We then introduce the chemical ratchet mechanism recently proposed for explaining the antenna effect, an enhancement of the binding affinity to a specific site on longer DNA, which deviates from a thermodynamic rule. We show that chemical ratchet cannot be described with a single set of rate equations but alternative sets of rate equations that temporally switch no faster than the binding reaction.
Palavras-chave
Texto completo:
1
Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Transcrição Gênica
/
RNA Polimerases Dirigidas por DNA
Limite:
Animals
/
Humans
Idioma:
En
Revista:
Biomolecules
Ano de publicação:
2020
Tipo de documento:
Article
País de afiliação:
Japão