ECF53
ECF proteins

General description: ECF53 is a group with a single subgroup. Members of ECF53 have homology to original ECF53 (100%) and are present in Actinobacteria (100%).

Special features: In agreement with original ECF53 (Huang et al., 2015), members of ECF53 contain a C-terminal extension of ~350 aa with a zinc-finger (30%) and an average of about one transmembrane helix. No putative AS factors were identified in the genetic contexts of members of ECF53.

Promoter motif conservation: Predicted target promoter motifs contain TGTTTATC in -35 and TCTCC in -10, in agreement with predictions for original ECF53 (Huang et al., 2015).

Genomic context conservation: Proteins conserved in the genomic context of members of ECF53 are an aldehyde dehydrogenase, proteins from an ABC transporter and an AsnC-type helix-turn-helix domain.

Summary: ECF53 contains a zinc-binding domain and a transmembrane helix as a C-terminal extension, as in original ECF53 (Huang et al., 2015). It is possible that the C-terminal extension functions as an AS factor.


 


Basic information

Number of representative ECFs: 101

Number of non-redundant ECFs: 130

Sequences with C-terminal extension: 100.00%

Sequences with N-terminal extension: 0.00%

Overrepresented order: Streptomycetales [93.07%]



Sample Neighborhood

Protein WP_029183868.1 of Assembly GCF_000242715.1 (Streptomyces acidiscabies 84-104)


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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