Computational Investigation of Structural Interfaces of Protein Complexes with Short Linear Motifs.
J Proteome Res
; 19(8): 3254-3263, 2020 08 07.
Article
em En
| MEDLINE
| ID: mdl-32579367
ABSTRACT
Protein complexes with short linear motifs (SLiMs) are known to play important regulatory functions in eukaryotes. In this investigation, I have studied the structures deposited in PDB with SLiMs. The structures were grouped into three broad categories of protein-protein, protein-peptide, and the rest as others. Protein-peptide complexes were found to be most highly represented. The interfaces were evaluated for geometric features and conformational variables. It was observed that protein-protein and protein-peptide complexes show characteristic differences in residue pairings, which were quantified by evaluating normalized contact residue pairing frequencies. Interface residues adopt characteristic canonical residue conformations in the Ramachandran space, with a pronounced preference for positive Ï conformations. It was observed that phosphorylated residues have an unusual propensity to adopt the positive Ï conformations at the interface.
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Base de dados:
MEDLINE
Assunto principal:
Peptídeos
/
Proteínas
Idioma:
En
Ano de publicação:
2020
Tipo de documento:
Article