CoBaHMA domains: supplementary Table and Data

Supplementary Table and Supplementary Data 1 to 4 to the article "AlphaFold2-guided description of CoBaHMA, a novel family of bacterial domains within the Heavy-Metal Associated superfamily" Supplementary Table 1 (.xlsx file): Structural and functional annotations of the large communities of CobaHMA domain proteins. The number of community sequences matching a given profile (IPR or ECOD) is indicated. The color code corresponds to the following functional categories. For each IPR accession, the type of profile is indicated between brackets (D for domain, F for family, H for superfamily). Structural and functional annotations of small communities. Only the 20 small communities with at least one new annotation (e.g. not shared with the large communities, in grey and black) are detailed here. For these 20 communities, some annotations are shared with the large communities, corresponding only to P-type (cyan) and HMA (yellow). For a complete view of the annotations of the small communties, see Supplementary Figure 5. The number of community sequences matching a given profile (IPR or ECOD) is indicated. For each IPR accession, the type of profile is indicated between brackets (D for domain, F for family, H for superfamily). Supplementary Data 1 (.zip file): Multiple sequence alignments (MSA) of the sequences of the most populated communities, build using MAFFT and rendered using EspPript3. The first two lines report the 2D structures of the AF2 model of the representative sequence of the community, and its amino acid sequence. The initial MSA (fasta format) is also provided, together with the coordinates of the 3D structure model (pdb format) and the HCA plot (postcript file) of the representative sequence of the considered community. Supplementary Data 2 (.zip file): Annotations by communities: Modular organization of the full-length CoBaHMA domain proteins within the 48 large community (Functional annotations are indicated along the sequence by shaded areas. Each functional category of domain is highlighted by the following color code: CoBaHMA (green), HMA_2 (lime), HMA (yellow), P-type (cyan) and Serca (darkblue), ABC (orange), Calcyanin Gly-Zip (red), PAP2 (magenta). Membrane regions as identified by deepTMHMM are indicated by gray areas. Supplementary Data 3 (.tsv file) Main features of communities (e.g. representative sequence, community size, mean amino acid length, annotations, …). Supplementary Data 4 (.tsv file) Mean features of sequences possessing CoBaHMA domain(s).