dbCAN: a web resource for automated carbohydrate-active enzyme annotation.
Carbohydrate-active enzymes (CAZymes) are very important to the biotech industry, particularly the emerging biofuel industry because CAZymes are responsible for the synthesis, degradation and modification of all the carbohydrates on Earth. We have developed a web resource, dbCAN (http://csbl.bmb.uga.edu/dbCAN/annotate.php), to provide a capability for automated CAZyme signature domain-based annotation for any given protein data set (e.g. proteins from a newly sequenced genome) submitted to our server. To accomplish this, we have explicitly defined a signature domain for every CAZyme family, derived based on the CDD (conserved domain database) search and literature curation. We have also constructed a hidden Markov model to represent the signature domain of each CAZyme family. These CAZyme family-specific HMMs are our key contribution and the foundation for the automated CAZyme annotation.
Computational System Biology Laboratory, Department of Biochemistry and Molecular Biology, Institute of Bioinformatics, BioEnergy Science Center, University of Georgia, Athens, GA, USA.
Yanbin
Y
Yin
Xizeng
X
Mao
Jincai
J
Yang
Xin
X
Chen
Fenglou
F
Mao
Ying
Y
Xu
D050260:Carbohydrate Metabolism; D004789:Enzyme Activation; D004798:Enzymes / Q000737:chemistry* / Q000145:classification / Q000378:metabolism; D020407:Internet; D054892:Metagenome; D058977:Molecular Sequence Annotation; D017434:Protein Structure, Tertiary; D016415:Sequence Alignment; D012984:Software
D004798:Enzymes