Socket2: a program for locating, visualizing and analyzing coiled-coil interfaces in protein structures.

ABSTRACT:

Motivation

Protein-protein interactions are central to all biological processes. One frequently observed mode of such interactions is the α-helical coiled coil (CC). Thus, an ability to extract, visualize and analyze CC interfaces quickly and without expert guidance would facilitate a wide range of biological research. In 2001, we reported Socket, which locates and characterizes CCs in protein structures based on the knobs-into-holes (KIH) packing between helices in CCs. Since then, studies of natural and de novo designed CCs have boomed, and the number of CCs in the RCSB PDB has increased rapidly. Therefore, we have updated Socket and made it accessible to expert and nonexpert users alike.

Results

The original Socket only classified CCs with up to six helices. Here, we repo

SUBMITTER: Kumar P 

PROVIDER: S-EPMC8652024 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature