Fig. 2: Bioinformatic analyses identified arCOG02177 and arCOG02178 proteins as potential lipoprotein biogenesis components. | Nature Communications

Fig. 2: Bioinformatic analyses identified arCOG02177 and arCOG02178 proteins as potential lipoprotein biogenesis components.

From: Uncovering the prevalence, key biogenesis enzymes, and biological significance of archaeal lipoproteins

Fig. 2

a Phyletic pattern of predicted lipoproteins compared with phyletic patterns of arCOG02177 and arCOG02178. For each genome, gene presence is shown as a vertical bar color-coded according to the major archaeal lineages indicated above. b Comparison of E. coli Lgt structure (PDB: 5AZB) and AlphaFold2 models of HVO_2859 and HVO_2611. Conserved residues in two different pockets are highlighted in red for one and magenta for the other. Dashed circles indicate similar subdomains between the Lgt structure and AlphaFold2 models. c HMM-HMM alignment of arCOG02177 (query) and arCOG02178 (target) showing the conserved residues. Complete alignments are shown in Datasets S4 and S5. The lower case corresponds to less conserved positions. The symbols between the query and the target reflect amino acid similarity between the two multiple alignments as follows: | indicates the mostly identical amino acids in respective alignment columns; +, very similar amino acids;. indicates positively scored amino acids; - indicates negatively scored amino acids; =, very different amino acids. d Conserved gene neighborhoods for arCOG02177 and arCOG02178. For each gene neighborhood, the species name, genome partition, and coordinates of the locus are indicated. Genes are depicted by block arrows, with the length roughly proportional to the gene size. arCOG02177 (aliA) and arCOG02178 (aliB) are shown in blue with a red outline. Lipoproteins are indicated by an asterisk. The genes in the neighborhoods are designated by respective arCOG numbers shown below the arrows, and gene or protein family names are indicated within the arrows. GldA glycerol dehydrogenase, IMP inositol monophosphatase family, MB uncharacterized metal binding protein, DeoC deoxyribose-phosphate aldolase, SpoIIM uncharacterized membrane protein, a component of a putative membrane remodeling system, YcaO ribosomal protein S12 methylthiotransferase accessory factor, RbsK sugar kinase, HTH helix-turn-helix protein.

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