Abstract

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.

Keywords

AnnotationBiologyComputational biologyUniProtSequence assemblyResource (disambiguation)Domain (mathematical analysis)BioinformaticsComputer scienceGeneticsGeneTranscriptome

Affiliated Institutions

Related Publications

Publication Info

Year
2012
Type
article
Volume
40
Issue
W1
Pages
W445-W451
Citations
1854
Access
Closed

External Links

View on DOI.org

Social Impact

Altmetric
PlumX Metrics

Social media, news, blog, policy document mentions

Citation Metrics

1854
OpenAlex

Cite This

Yanbin Yin, Xizeng Mao, Jincai Yang et al. (2012). dbCAN: a web resource for automated carbohydrate-active enzyme annotation. Nucleic Acids Research , 40 (W1) , W445-W451. https://doi.org/10.1093/nar/gks479

Identifiers

DOI
10.1093/nar/gks479