Socket2 Colab

Socket2 finds knobs-into-holes (KIH) packing between α-helices of protein structures (Crick, 1953; Walshaw and Woolfson, 2001). KIH packing is the structural hallmark of coiled-coil (CC) assemblies. Socket2 unambiguously defines the beginning and end of CC regions from the PDB-format structure files, and present these graphically and interactively. It also assigns heptad repeats and registers to the identified CCs, which are the sequence signatures of CC proteins (Lupas & Bassler, 2017).

Run Socket2 on Google Colab

Running locally

We provide an executable for Linux users. For other systems, go to Socket2 and type 'make' at the command prompt.

Please consider citing these articles if you use results from Socket2

1. Kumar, P. & Woolfson, D.N. (2021) Bioinformatics, 2021 Dec 7;37(23):4575-4577
2. Walshaw, J. & Woolfson, D.N. (2001) J. Mol. Biol., 307 (5), 1427-1450