Secondary structure, a missing component of sequence-based minimotif definitions.

Autor: Sargeant DP; School of Life Sciences, University of Nevada Las Vegas, Las Vegas, Nevada, USA., Gryk MR, Maciejewski MW, Thapar V, Kundeti V, Rajasekaran S, Romero P, Dunker K, Li SC, Kaneko T, Schiller MR
Jazyk: angličtina
Zdroj: PloS one [PLoS One] 2012; Vol. 7 (12), pp. e49957. Date of Electronic Publication: 2012 Dec 07.
DOI: 10.1371/journal.pone.0049957
Abstrakt: Minimotifs are short contiguous segments of proteins that have a known biological function. The hundreds of thousands of minimotifs discovered thus far are an important part of the theoretical understanding of the specificity of protein-protein interactions, posttranslational modifications, and signal transduction that occur in cells. However, a longstanding problem is that the different abstractions of the sequence definitions do not accurately capture the specificity, despite decades of effort by many labs. We present evidence that structure is an essential component of minimotif specificity, yet is not used in minimotif definitions. Our analysis of several known minimotifs as case studies, analysis of occurrences of minimotifs in structured and disordered regions of proteins, and review of the literature support a new model for minimotif definitions that includes sequence, structure, and function.
Databáze: MEDLINE