Anaerobic peroxisomes in Entamoeba histolytica metabolize myo-inositol
Description
The data include alignments used for phylogenetic analysis of Pex1/Pex6 (Fig 3) and myo-inositol dehydrogenase (Fig 12) presented in publication: Anaerobic peroxisomes in Entamoeba histolytica metabolize myo-inositol Verner et al., PLoS Pathogens, 2021
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Representatives of the ATPases associated with various cellular activities (AAA) and protein families with various functions were selected from the Swiss-Prot protein database (https://www.uniprot.org/) and aligned with predicted Pex1 and Pex6 amino acid sequences using MAFFT (version 7) [1]. Representatives of GFO_IDH_MocA protein family were selected from the Swiss-Prot protein database and based on known crystal structures [2, 3]. The alignments were trimmed using Block Mapping and Gathering with Entropy (BMGE) [4] 1. Katoh K, Standley DM. MAFFT multiple sequence alignment software version 7: Improvements in performance and usability. Mol Biol Evol. 2013;30: 772–780. doi:10.1093/molbev/mst010 2. Fukano K, Ozawa K, Kokubu M, Shimizu T, Ito S, Sasaki Y, et al. Structural basis of L-glucose oxidation by scyllo-inositol dehydrogenase: Implications for a novel enzyme subfamily classification. PLoS One. 2018;13. doi:10.1371/journal.pone.0198010 3. van Straaten KE, Zheng H, Palmer DRJ, Sanders DAR. Structural investigation of myo-inositol dehydrogenase from Bacillus subtilis: implications for catalytic mechanism and inositol dehydrogenase subfamily classification. Biochem J. 2010;432: 237–247. doi:10.1042/BJ20101079 4. Criscuolo A, Gribaldo S. BMGE (Block Mapping and Gathering with Entropy): A new software for selection of phylogenetic informative regions from multiple sequence alignments. BMC Evol Biol. 2010;10. doi:10.1186/1471-2148-10-210