Hello, where can I get trees with distance information of whole classes or kingdoms like bacteria? Someone must have done this already for the known genomes. Please note, distances must be included, else it would just be a taxonomic tree.
You can predict the orthologs of protein/gene of interest from different kingdom/phyla using SMART: http://smart.embl-heidelberg.de/smart/set_mode.cgi?NORMAL=1 or http://smart.embl-heidelberg.de/smart/set_mode.cgi?GENOMIC=1 and generate the lifetree from different kingdom/phylum using ITOL. But, ITOL may not provide genetic distance, in that case, you have to use MEGA https://www.megasoftware.net/ or any other phylogenetic softwares to calculate genetic distance.