Fig. 5: Laccase-like multi-copper oxidase (LCMO) phylogeny and classification using TreeSAPP LCMO reference package. | The ISME Journal

Fig. 5: Laccase-like multi-copper oxidase (LCMO) phylogeny and classification using TreeSAPP LCMO reference package.

From: Discovery of lignin-transforming bacteria and enzymes in thermophilic environments using stable isotope probing

Fig. 5

A Phylogeny of reference LCMOs. Protein sequences were aligned using MAFFT using the ginsi setting under 1000 iterations. Phylogeny was reconstructed using RAxML under the PROTGAMMAPMB model with 1000 iterations. Values beside labels show the number of reference sequences for each clade. B K-type (2dMCO SLAC) sequences from MAGs placed into reference tree. Presence of 5’ signal peptides shown using a green square. C Phylogenetic placement of LCMO sequences from MAGs in the O-type (2dMCO) clade. D Multiple alignment of reference and MAG LMCO sequences. Blue denotes 2dMCOs and red denotes 3dMCOs. Length of 5’ signal peptides shown in green. Yellow markings denote conserved copper-binding residues. Blue markings denote substrate-binding residues. Gray denotes strength of conservation. Yellow region shows possible active-site protecting fold in Type-K1 SLACs.

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