Internal force field in selected proteins.
Acta Biochim Pol
; 66(4): 451-458, 2019 Nov 20.
Article
em En
| MEDLINE
| ID: mdl-31747510
ABSTRACT
The fuzzy oil drop model suggests that the tertiary conformation of a protein - particularly a globular one - can be likened to a spherical micelle. During the folding process, hydrophilic residues are exposed on the surface, while hydrophobic residues are retained inside the protein. The resulting hydrophobicity distribution can be mathematically modeled as a 3D Gaussian. The fuzzy oil drop model is strikingly effective in explaining the properties of type II antifreeze proteins and fast-folding proteins, as well as a vast majority of autonomous protein domains. This work aims to determine whether similar mechanisms apply to other types of nonbonding interactions. Our analysis indicates that electrostatic and van der Waals forces do not conform to the Gaussian pattern. The study involves a reference protein (titin) which shows a high agreement between the observed distribution of hydrophobicity and the theoretical (Gaussian) distribution, a selection of amyloid structures derived from the Protein Data Bank, as well as transthyretin - a protein known for its susceptibility to amyloid transformation.
Texto completo:
1
Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Proteínas
/
Dobramento de Proteína
/
Interações Hidrofóbicas e Hidrofílicas
Limite:
Humans
Idioma:
En
Revista:
Acta Biochim Pol
Ano de publicação:
2019
Tipo de documento:
Article
País de afiliação:
Polônia