ECF46 ECF proteins

General description: ECF46 is present in Gram-negative bacteria from the phyla Planctomycetes (44.44%), Proteobacteria (37.04%) and Verrucomicrobia (18.56%) and has homology to original ECF46 (100%).

Anti-σ factor: Members of ECF46 contain putative AS factors with one transmembrane helix (92.59%) in position +1. These AS factors typically contain AS domain with homology to FecR AS factor (Pfam: FecR) and an extracytoplasmic region with homology to concanavalin A-like lectin/glucanases (Pfam: Laminin_G_3), a carbohydrate binding domain.

Genomic context conservation: Other proteins conserved in the genomic context include the N-terminal domain of an alpha-L-rhamnosidase (ECF46s4) and a sulfatase fused to a DUF4976 (ECF46s4 and ECF46s3).

Promoter motif conservation: The promoter motifs are not conserved, which might indicate the lack of autoregulation.

Summary: All in all, ECF46 is regulated by one-TM helix-containing FecR-like AS factors that might be sensing carbohydrates in the periplasm of gram-negative organisms.


 


Basic information

Number of representative ECFs: 44

Number of non-redundant ECFs: 61

Sequences with C-terminal extension: 0.00%

Sequences with N-terminal extension: 6.56%

Overrepresented phylum: Planctomycetes [50.00%]



Sample Neighborhood

Protein WP_008668449.1 of Assembly GCF_000346315.1 (Rhodopirellula europaea SH398)


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
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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