Dataset for: Prediction of eukaryotic cellular complexity in Asgard archaea using structural modelling

This repository contains the dataset, protein database, predicted structures, and phylogenetic analyses supporting the manuscript: <b>"</b><b>Prediction of eukaryotic cellular complexity in Asgard archaea using structural modelling</b><b>"</b>The data includes the Asgard archaea protein database, structural model predictions, multiple sequence alignments (MSAs), and IQ-TREE phylogenetic outputs.File Inventory<b>1. Protein Databases &amp; Annotations</b><code><strong>Asgard_DB.faa.gz</strong></code>: The comprehensive Asgard archaea protein database (FASTA amino acid format) used for this study.<code><strong>Asgard_structure_anno.tsv</strong></code>: Functional and structural annotations for the predicted proteins, including confidence scores and domain mappings.<b>2. Structural Modeling Data</b><code><strong>all_structures.tar.gz</strong></code>: The complete set of predicted protein structures generated in this study.<code><strong>Asgard_best_structures.zip</strong></code>: A filtered set containing the highest-confidence/best-ranked structural models.<code><strong>Asgard_cluster_summary.tar.gz</strong></code>: Summary statistics and metadata regarding the structural clustering analysis.<b>3. Orthology &amp; Alignments</b><code><strong>Asgard_denovo_ogs.tar.gz</strong></code>: Sequences for the <i>de novo</i> defined Orthologous Groups (OGs).<code><strong>Asgard_denovo_ogs_aln.tar.gz</strong></code>: Multiple Sequence Alignments (MSAs) corresponding to the <i>de novo</i> OGs.<code><strong>Asgard_ascogs.tar.gz</strong></code>: Data related to Asgard-specific Clusters of Orthologous Groups (AsCOGs).<b>4. Phylogenetics</b><code><strong>figshare_phylogenomics.tar.gz</strong></code>: Input data and outputs for the phylogenomic species tree reconstruction (including concatenated alignments).<code><strong>20240619_supplemental_data_phylogenies.tar.gz</strong></code>: Supplemental single-gene phylogenies and associated IQ-TREE output files.