Abstract
SMART (Simple Modular Architecture Research Tool) is a web resource (http://smart.embl.de/) providing simple identification and extensive annotation of protein domains and the exploration of protein domain architectures. In the current version, SMART contains manually curated models for more than 1200 protein domains, with ∼200 new models since our last update article. The underlying protein databases were synchronized with UniProt, Ensembl and STRING, bringing the total number of annotated domains and other protein features above 100 million. SMART's ‘Genomic’ mode, which annotates proteins from completely sequenced genomes was greatly expanded and now includes 2031 species, compared to 1133 in the previous release. SMART analysis results pages have been completely redesigned and include links to several new information sources. A new, vector-based display engine has been developed for protein schematics in SMART, which can also be exported as high-resolution bitmap images for easy inclusion into other documents. Taxonomic tree displays in SMART have been significantly improved, and can be easily navigated using the integrated search engine.
Highlights
Protein domain analysis remains an important research tool, made easy by various frequently used online domain resources and databases (e.g. 1–3)
The underlying protein databases were synchronized with UniProt, Ensembl and STRING, bringing the total number of annotated domains and other protein features above 100 million
A new, vector-based display engine has been developed for protein schematics in SMART, which can be exported as highresolution bitmap images for easy inclusion into other documents
Summary
Protein domain analysis remains an important research tool, made easy by various frequently used online domain resources and databases (e.g. 1–3). The SMART database (4) integrates manually curated hidden Markov models (5) for many domains with a powerful web-based interface offering various analysis and visualization tools. After more than 15 years since its inception it remains a popular and widely used by scientists worldwide. We give an overview of the major developments and new features introduced since our last update (6)
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