ECF111 ECF proteins

General description: Proteins from ECF111 are homologous to original ECF111 (only ECF111s1 and ECF111s2, 15.25% of the total). ECF111 is rich in proteins from underrepresented organisms since it is present in Cyanobacteria (68.75%) (ECF111s1, ECF111s2 and ECF111s4), Thermotogae (14.06%) (ECF111s3), Proteobacteria (10.94%) (ECF111s5), Acidobacteria (4.69%) (ECF111s6) and Fibrobacteres (1.56%) (ECF111s8).

Special features: Proteins from ECF111 might be regulated by a putative AS factor encoded in position +1 with one TM helix (64.91%). Position +2 contains an LTXXQ motif in ECF111s2 and heavy-metal resistance proteins in other subgroups. LTXXQ motif appears in periplasmic proteins that participate in response to stress, and it is also present in ECF03 (Danese & Silhavy, 1998).

Genomic context conservation: The conservation of the genetic context does not go beyond these proteins.

Promoter motif conservation: Predicted target promoter motifs are conserved and contain TTGAACCT in -35 and GTCTAAA in -10, indicating a possible autoregulatory role of ECFs from ECF111.

Summary: AS factors located in +1 might regulate members of ECF111. It is likely that ECF111 is involved in cell envelope stress and/or heavy-metal resistance since the protein in position +1 is typically a heavy-metal resistance protein, and the AS factors contain one transmembrane helix.


 


Basic information

Number of representative ECFs: 151

Number of non-redundant ECFs: 177

Sequences with C-terminal extension: 0.00%

Sequences with N-terminal extension: 0.56%

Overrepresented phylum: Cyanobacteria [54.30%]



Sample Neighborhood

Protein WP_012164931.1 of Assembly GCF_000018105.1 (Acaryochloris marina MBIC11017)


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
CpxP, a stress-combative member of the Cpx regulon. Journal of bacteriology 1998 P. Danese, T. Silhavy PubMed: 9473036 ECF03, ECF111
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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