Fig. 3

Structure and phylogenetic analysis of UBC domain-containing proteins in soybean. a Graphical sequence logo representing sequence of the UBC domains from 91 soybean UBC domain-containing proteins. The overall height of each stack indicates the degree of sequence conservation, while the height of the letters within each stack indicates the relative frequency of corresponding amino acid at the location. The width of the letters is proportional to the fraction of valid letters in that position. Error bars indicate a Bayesian 95% confidence interval. Blue, green and black letters show hydrophilic, neutral and hydrophobic residue, respectively. The bit score of the Y-axis denotes the information content of a given sequence position. Red arrow indicates the active cysteine residue. Positions of secondary structure elements are marked by α for α-helices, β for β-sheets, η for 3₁₀-helix, TTT for α-turns and TT for α- and β-turns on top of the logo, respectively. b Phylogenetic tree of 91 UBC domain-containing proteins based on the full-length protein sequences. Different types of E2 proteins are indicated with different colors. UEV: ubiquitin-conjugating enzyme variant, RCE: RUB-conjugating enzyme, SCE: SUMO-conjugating enzyme, ELC: ELCH, UFC1: Ubiquitin-fold modifier 1-conjugating enzyme. c Two representative domain organizations of the 71 soybean ubiquitin E2 proteins. UBC: ubiquitin-conjugating domain, UBA: ubiquitin-associated domain