ECF48 ECF proteins

General description: Proteins from ECF48 are homologous to proteins from the original ECF48 (14%) and are present in Actinobacteria (100%). Members of ECF48 contain C-terminal extensions with a zinc-finger and one transmembrane helix, except in ECF48s2, where the C-terminal extension is shorter and soluble. The length of the C-terminal extension ranges from ~60 aa in ECF48s2 to ~400 aa in ECF48s4.

Genomic context conservation: We found neither a conserved domain in the context of ECF48 nor any putative AS factor.

Promoter motif conservation: The predicted target promoter motifs are not conserved, and we did not find the target promoter predicted for original ECF48 (Huang, Pinto, Fritz, & Mascher, 2015) in our analysis.

Summary: Therefore, it is likely that ECF48, like in the case of original ECF48 (Huang et al., 2015), is regulated by the zinc-finger of its C-terminal extension.


 


Basic information

Number of representative ECFs: 93

Number of non-redundant ECFs: 100

Sequences with C-terminal extension: 99.00%

Sequences with N-terminal extension: 1.00%

Overrepresented order: Corynebacteriales [83.87%]



Sample Neighborhood

Protein WP_076115933.1 of Assembly GCF_001954215.1 (Mycobacterium sp. IS-2888)


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
Environmental Sensing in Actinobacteria: a Comprehensive Survey on the Signaling Capacity of This Phylum. Journal of bacteriology 2015 X. Huang, D. Pinto, G. Fritz, T. Mascher PubMed: 25986905 ECF122, ECF56, ECF118, ECF128, ECF51, ECF52, ECF132, ECF53, ECF123, ECF125, ECF54, ECF130, ECF131, ECF218, ECF294, ECF48
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