Protein sequence and structure datasets

This repo contains scripts for creating various protein sequence and structure datasets, as well as some guides for how to use them.

Contents

proteinfeatures

Protein amino acid features.

cpdb

Working with the cullPDB dataset created in Zhou & Troyanskaya, 2014.

cpdb2

Creating a new protein sequence-structure dataset following the methods used for the cullPDB dataset, referred to as cpdb2.

psiblast

Scripts for calling NCBI+ psiblast on large fasta files from BioPython and handling the results using multiprocessing.