The Expansin Engineering Database: a navigation and classification tool
for expansins and homologues
Abstract
Expansins have the remarkable ability to loosen plant cell walls and
cellulose material without showing catalytic activity and therefore have
potential applications in biomass degradation. To support the study of
sequence-structure-function relationships and the search for novel
expansins, the Expansin Engineering Database (ExED,
https://exed.biocatnet.de) collected sequence and structure data on
expansins from Bacteria, Fungi, and Viridiplantae, and expansin-like
homologues such as carbohydrate binding modules, glycoside hydrolases,
loosenins, swollenins, cerato-platanins, and EXPNs. Based on global
sequence alignment and protein sequence network analysis, the sequences
are highly diverse. However, many similarities were found between the
expansin domains. Newly created profile hidden Markov models of the two
expansin domains enable standard numbering schemes, comprehensive
conservation analyses, and genome annotation. Conserved key amino acids
in the expansin domains were identified, a refined classification of
expansins and carbohydrate binding modules was proposed, and new
sequence motifs facilitate the search of novel candidate genes and the
engineering of expansins.