ECF106 ECF proteins

General description: Proteins from ECF106 have homology to original ECF106 (33.2%), and it is present in Firmicutes (100%).

Special features: In agreement with original ECF106 (Staroń et al., 2009), proteins from new ECF106 encoded AS factors with one transmembrane helix (97.14%) in position +1 (except ECF106s6). These AS factors contain a DUF4367 in most of its subgroups.

Genomic context conservation: The genetic context conservation only extends to the inner membrane component of an ABC transporter (Pfam: BPD_transp_1) in subgroup ECF106s1.

Promoter motif conservation: Putative target promoter motifs are not conserved, indicating lack of autoregulation of members of ECF106.

Summary: ECF106 is regulated by AS factors with one transmembrane helix and a DUF4367. New ECF106 expands original ECF106 while maintaining the same characteristics.


 


Basic information

Number of representative ECFs: 134

Number of non-redundant ECFs: 247

Sequences with C-terminal extension: 0.00%

Sequences with N-terminal extension: 0.00%

Overrepresented class: Clostridia [60.45%]



Sample Neighborhood

Protein AHF09052.1 of Assembly GCA_000512895.1 (Dehalobacter restrictus DSM 9455)


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
The third pillar of bacterial signal transduction: classification of the extracytoplasmic function (ECF) sigma factor protein family. Molecular microbiology 2009 A. StaroĊ„, H. Sofia, S. Dietrich, L. Ulrich, H. Liesegang, T. Mascher PubMed: 19737356 ECF103, ECF21, ECF123, ECF51, ECF39, ECF281, ECF102, ECF130, ECF122, ECF291, ECF15, ECF242, ECF22, ECF285, ECF106, ECF27, ECF31, ECF240, ECF114, ECF16, ECF38, ECF41, ECF105, ECF116, ECF111, ECF03, ECF239, ECF42, ECF294, ECF17, ECF11, ECF29, ECF235, ECF293, ECF118, ECF265, ECF30, ECF23, ECF14, ECF249, ECF18, ECF115, ECF290, ECF25, ECF121, ECF02, ECF120, ECF289, ECF28, ECF243, ECF19, ECF43, ECF107, ECF12, ECF32, ECF36, ECF292, ECF286, ECF271, ECF26, ECF40, ECF56, ECF33
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