Anti-σ factor: As in the case of original ECF38 and ECF39 (Staroń et al., 2009), the proteins in position +1 are putative AS factors, except in ECF38s4, which is associated with YCII-related domain protein in position -1 like proteins from ECF42. These putative AS factors contain one transmembrane helix (67.46%) and no Pfam domain.
Genomic context conservation: Other domains proteins encoded in the genetic context of members of ECF38 are a HIT protein (-1 of ECF38s5 and ECF38s6), a PhoH-like protein (-2 of ECF38s5), a UPF0054 protein (ECF38s5 and ECF38s6), a transporter fused to a DUF21 (ECF38s5 and ECF38s6), a SURF1 protein (+2 of ECF38s1), a DUF3097 (ECF38s5 and ECF38s6), DnaJ (ECF38s5 and ECF38s6), a protein with a DeoR-like helix-turn-helix domain fused to the C-terminal domain of HrcA (ECF38s5 and ECF38s6), a DUF4870 (ECF38s5), a RNA methyltransferase (ECF38s5 and ECF38s6), a 50S ribosome-binding GTPase (ECF38s5), a YbaB/EbfC protein (ECF38s1), an amino acid kinase with an ACT domain (ECF38s1), a DUF5063 (ECF38s1), a semialdehyde dehydrogenase (ECF38s1), RecR (ECF38s1) and a fructose-bisphosphate aldolase class-II (ECF38s4).
Promoter motif conservation: Predicted target promoter motifs are subgroup-specific. In subgroups ECF38s1, ECF38s6 and ECF38s9 there is AACC in -35 and TC in -10. These motifs agree with original ECF39 (Rhodius et al., 2013).
Number of representative ECFs: 1690
Number of non-redundant ECFs: 1490
Sequences with C-terminal extension: 2.62%
Sequences with N-terminal extension: 17.72%
Overrepresented class: Actinobacteria [99.88%]
|The third pillar of bacterial signal transduction: classification of the extracytoplasmic function (ECF) sigma factor protein family.||Molecular microbiology||2009||A. Staroń, H. Sofia, S. Dietrich, L. Ulrich, H. Liesegang, T. Mascher||PubMed: 19737356||ECF114, ECF31, ECF22, ECF12, ECF27, ECF122, ECF121, ECF56, ECF03, ECF21, ECF23, ECF02, ECF41, ECF15, ECF107, ECF111, ECF39, ECF19, ECF25, ECF17, ECF26, ECF118, ECF11, ECF16, ECF42, ECF38, ECF103, ECF36, ECF28, ECF51, ECF115, ECF40, ECF14, ECF29, ECF123, ECF33, ECF102, ECF105, ECF106, ECF116, ECF130, ECF18, ECF235, ECF120, ECF239, ECF240, ECF242, ECF243, ECF249, ECF265, ECF271, ECF281, ECF285, ECF286, ECF289, ECF290, ECF291, ECF292, ECF293, ECF294, ECF30, ECF32, ECF43|
|Design of orthogonal genetic switches based on a crosstalk map of σs, anti-σs, and promoters.||Molecular systems biology||2013||V. Rhodius, T. Segall-Shapiro, B. Sharon, A. Ghodasara, E. Orlova, H. Tabakh, D. Burkhardt, K. Clancy, T. Peterson, C. Gross, C. Voigt||PubMed: 24169405||ECF22, ECF27, ECF03, ECF21, ECF39, ECF25, ECF26, ECF42, ECF38, ECF14, ECF29, ECF33, ECF281, ECF290, ECF291|