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. 2018 Mar 26;115(15):E3378–E3387. doi: 10.1073/pnas.1717015115

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Fig. 2. — Bioinformatic analysis of IpdAB and homologs. Phylogenetic tree displaying IpdA and α-subunits from class I and II CoTs. Shaded regions indicate gram-positive IpdA (blue), gram-negative IpdA (green), or class I β-keto-CoA (purple), class I (yellow) and class II (gray) CoTs. Proteins displayed are IpdA from R. jostii RHA1 (IpdA_RHA1), R. equi (IpdA_Req; IpdA2_Req), M. smegmatis (IpdA_Msmeg), Mtb (IpdA_Mtb), Steroidobacter denitrificans (IpdA_ACG33), and Comamonas testosteroni CNB-2 (IpdA_CNB2); β-ketoadipyl-CoT from Pseudomonas putida (PcaI); glutaconate CoT from A. fermentans (GCT); citrate lyases from Enterobacter aerogenes (CitC) and Clostridium argentinense (CitF); butyrate-acetoacetate CoT from Clostridium acetobutylicum (CtfA); acetate CoTs from E. coli (ACT and YdiF); succinyl-CoTs from Bacillus subtillus (ScoA_Bsub), Helicobacter pylori (ScoA_Hpy), and pig heart (SCT); and propionyl-CoT from Clostridium propionicum (PCT). Additional information is available in Supporting Information. Numbers at tree nodes correspond to nonparametric bootstrap values from 100 maximum-likelihood calculations. Bootstrap values >90 are not displayed.