ECF287 ECF proteins

General description: Members of ECF287 are present in Actinobacteria (100%) and contain a conserved ~80 aa C-terminal extension of an unknown domain.

Anti-σ factor: No putative AS factor was found in the genetic context of members of ECF287.

Genomic context conservation: Members of ECF287 are encoded with transcriptional regulators from MerR family (0.44 and 0.22 per ECF of ECF287s1 and ECF287s2, respectively) and TetR family (0.22 and 0.57 per ECF of ECF287s1 and ECF287s2, respectively). Other conserved proteins in the genetic context of members of ECF287 include a soluble alpha/beta hydrolase encoded in position -1.

Promoter motif conservation: Predicted target promoter motifs are only conserved in -35, with a common TCG in ECF287s1 and ECF287s2.

Summary: Members of ECF287 could be regulated by their C-terminal extension since they do not contain putative AS factors in their genetic context. The regulation could be carried out by disulfide bridges since the ECFs from ECF287 contain several conserved cysteine residues, also within their C-termini. A similar mechanism controls the activity of CorE2 from M. xanthus (Marcos-Torres et al., 2016; Torres et al., 2018) (ECF238s15) and SigK from M. tuberculosis (Shukla et al., 2014) (ECF19s2).


 


Basic information

Number of representative ECFs: 57

Number of non-redundant ECFs: 55

Sequences with C-terminal extension: 98.18%

Sequences with N-terminal extension: 1.82%

Overrepresented order: Corynebacteriales [91.23%]



Sample Neighborhood

Protein WP_068022876.1 of Assembly GCF_001613165.1 (Nocardia mexicana NBRC 108244)


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
In depth analysis of the mechanism of action of metal-dependent sigma factors: characterization of CorE2 from Myxococcus xanthus. Nucleic acids research 2016 F. Marcos-Torres, J. Pérez, N. Gómez-Santos, A. Moraleda-Muñoz, J. Muñoz-Dorado PubMed: 26951374 ECF238, ECF287, ECF288
The complex global response to copper in the multicellular bacterium Myxococcus xanthus. Metallomics : integrated biometal science 2018 J. Pérez, J. Muñoz-Dorado, A. Moraleda-Muñoz PubMed: 29961779 ECF238, ECF287, ECF288
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