Additional supplemental data repository for "Acanthamoeba castellanii genome reannotation and multi-omic encystation profiling reveals cyst wall proteins and enzymes"

This repository contains additional supplementary datasets used in the study "Acanthamoeba castellanii genome reannotation and multi-omic encystation profiling reveals cyst wall proteins and enzymes", as part of the MitoCarta Tree of Life (MitoTOL) project. ----- The archive includes: ACANB_proteome_Colabfold_highest_plddt_model.tar.xz — Protein structures predicted by ColabFold (v1.5.5, implementation of AlphaFold2 using mmseqs2, using default settings) for the entire ACANB proteome. For each protein, we retained the most confidently predicted model (based on pLDDT) for downstream analysis. ACANB_virus_alignments_and_trees.tar.xz — Protein fasta files, multiple sequence alignments, and maximum-likelihood phylogenies for each orthogroup containing both an ACANB protein and a viral homolog. ----- Detailed documentation of file contents is provided in the accompanying README.txt. Associated code for downstream analysis and dependencies (e.g. orthogroup inference) is available at:https://github.com/michaelzhuchen/mito-evolution Please cite this dataset using 10.5281/zenodo.21312191