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. 2023 Feb 8;120(7):e2217114120. doi: 10.1073/pnas.2217114120

Fig. 5.

Fig. 5.

HopBY homologs are present in diverse bacterial species as type III or type VI effectors. (A) Maximum-likelihood phylogeny of HopBY homologs using structure-guided protein sequence alignment. The homologs are grouped in two clades with the Pseudomonas syringae HopBY labeled as “1.” Tips are labeled as green (T3Es with a hrp box in the promoter) or pink (putative T6Es). The predicted Hrp2 T3E was labeled as black. The scale shows substitutions per site. (B) AlphaFold2 models of HopBY homologs, which show diverse overall structures. Numbers correspond to panel A. 1: Pseudomonas syringae coronafaciens ICMP 4457, 2: Brenneria sp. EniD312, 3: Gammaproteobacteria RS470, 4: Paraburkholderia sp. ZP32-5, 5: Duganella sp. CF517, 6: Pseudomonas frederiksbergensis PgKB32. The HopBY-like ADPR cyclase domain is always on the C terminus of each protein, which is highlighted in cyan. (C) Sequence logo showing the conservation of residues in the region surrounding the catalytic Glu residue (corresponding to positions 300 to 310 aa in the Pseudomonas syringae HopBY). W301 and E305 are 100% conserved in all the 44 homologs.