ECF132 ECF proteins

General description: Proteins from ECF132 are homologous to proteins from original ECF132 (80.22%) and are present in Actionobacteria (100%).

Anti-σ factors: Members of ECF132 might be regulated by a putative AS factor encoded in position +1. Most of the proteins in this position contain one transmembrane helix (58.14%, ~100% when looking at the MSA) but no Pfam domain. The only member of ECF131s5 contains extracytoplasmic domains related to sulfolipid transport (Pfam: SfLAP) and hemolysis (Pfam: Bacillus_HBL) (source: Pfam).

Genomic context conservation: Other than the AS factor, genetic neighborhoods of members of ECF131s1 contain a conserved CoA-binding protein in +2 with homology to YccU from E. coli, a protein overproduced when the cells grow in oleic acid, and also a conserved adenylosuccinate synthetase involved in purine biosynthesis and a YjbR domain.

Promoter motif conservation: Promoter motifs are not conserved, which might be due to the few sequences included in each group.

Summary: In conclusion, ECF132 is associated with single transmembrane helix putative AS factors located in position +1 in ECF132.


 


Basic information

Number of representative ECFs: 175

Number of non-redundant ECFs: 182

Sequences with C-terminal extension: 0.00%

Sequences with N-terminal extension: 1.10%

Overrepresented phylum: Actinobacteria [99.43%]



Sample Neighborhood

Protein ACL38666.1 of Assembly GCA_000022025.1 (Pseudarthrobacter chlorophenolicus A6)


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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