MotifAnalyzer-PDZ: A computational program to investigate the evolution of PDZ-binding target specificity.

ABSTRACT: Recognition of short linear motifs (SLiMs) or peptides by proteins is an important component of many cellular processes. However, due to limited and degenerate binding motifs, prediction of cellular targets is challenging. In addition, many of these interactions are transient and of relatively low affinity. Here, we focus on one of the largest families of SLiM-binding domains in the human proteome, the PDZ domain. These domains bind the extreme C-terminus of target proteins, and are involved in many signaling and trafficking pathways. To predict endogenous targets of PDZ domains, we developed MotifAnalyzer-PDZ, a program that filters and compares all motif-satisfying sequences in any publicly available proteome. This approach enables us to determine possible PDZ binding targets in humans a

SUBMITTER: Valgardson J 

PROVIDER: S-EPMC6863708 | biostudies-literature | 2019 Dec

REPOSITORIES: biostudies-literature