ECF62 ECF proteins

General description: Members of ECF62 are present in Planctomycetes (100%) and have homology to original ECF62 (92.59%).

Genomic context conservation: All the subgroups contain a protein kinase 1 (average of 1.27 copies per genetic context), usually encoded in position +1 and with one transmembrane helix (50.69%, ~100% looking at the MSA). In subgroups ECF62s1 and ECF62s2, the protein kinase is fused to WD repeats (average of 3.18 copies per ECF). WD40 repeats are found mainly in eukaryotes, where they fold into beta propellers that serve as platforms for the reversible binding of protein complexes or the recognition of post-translational modifications (Xu & Min, 2011). In subgroups ECF62s1 (only visible in the MSA), ECF62s2 and ECF62s3, the protein kinase contains a zinc-finger in N-terminal.

Promoter motif conservation: Predicted target promoter motifs are not conserved.

Summary: New and original ECF62 share the same characteristics in terms of conservation of a protein kinase in their genetic neighborhood (Jogler et al., 2012). In this study, we can resolve the domain composition of these kinases, which have WD40 repeats in the largest subgroup and a zinc-finger in ECF62s1, ECF62s2, and ECF62s3.


Basic information

Number of representative ECFs: 45

Number of non-redundant ECFs: 54

Sequences with C-terminal extension: 1.85%

Sequences with N-terminal extension: 1.85%

Overrepresented class: Planctomycetia [97.78%]



Sample Neighborhood

Protein WP_008685225.1 of Assembly GCF_000346505.1 (Rhodopirellula sallentina SM41)


Promoter Motif



Figures

Protein sequence length distribution

Gene neighbourhood conservation analysis


Overall Pfam domain distribution: Cumulative frequency of Pfam domains across the genetic neighborhoods. Frequency is expressed as number of Pfam domains per ECF sigma factor. Only domains present in more than 75% of the neighborhoods are shown. Genetic neighborhoods contain the proteins encoded in ±10 from the ECF coding sequence. Only the non-overlapping, highest scoring domains are considered positive. If a protein contains several copies of a domain, only one instance is further considered. In order to avoid sequence bias, only proteins from assemblies defined as "representative" or "reference" by NCBI are included (see https://www.ncbi.nlm.nih.gov/assembly/help/).
Pfam domain distribution per position: Frequency of Pfam domain architectures in the proteins encoded in ±10 (x-axis) from the ECF coding sequences. Frequency is expressed as number of times a certain domain architecture appears per ECF sigma factor. Only the highest scoring domains with no position overlap are considered in the domain architectures. Note that the order of the Pfam domains in domain architectures may differ from their name. When a protein contains several copies of a domain, only one instance is further considered. Only domain architectures present in more than 20% of the proteins encoded in any position are shown. In order to avoid sequence bias, only proteins from assemblies defined as "representative" or "reference" by NCBI are included (see https://www.ncbi.nlm.nih.gov/assembly/help/).

Related publications

Title Journal Year Authors PubMed ECF groups
Structure and function of WD40 domain proteins. Protein & cell 2011 C. Xu, J. Min PubMed: 21468892 ECF62
Identification of proteins likely to be involved in morphogenesis, cell division, and signal transduction in Planctomycetes by comparative genomics. Journal of bacteriology 2012 C. Jogler, J. Waldmann, X. Huang, M. Jogler, F. Glöckner, T. Mascher, R. Kolter PubMed: 23002222 ECF59, ECF46, ECF57, ECF62, ECF61, ECF217, ECF58
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