SMART: recent updates, new developments and status in 2020.

Ivica Letunic,Supriya Khedkar,Peer Bork

doi:10.1093/nar/gkaa937

Abstract

SMART (Simple Modular Architecture Research Tool) is a web resource (https://smart.embl.de) for the identification and annotation of protein domains and the analysis of protein domain architectures. SMART version 9 contains manually curated models for more than 1300 protein domains, with a topical set of 68 new models added since our last update article (1). All the new models are for diverse recombinase families and subfamilies and as a set they provide a comprehensive overview of mobile element recombinases namely transposase, integrase, relaxase, resolvase, cas1 casposase and Xer like cellular recombinase. Further updates include the synchronization of the underlying protein databases with UniProt (2), Ensembl (3) and STRING (4), greatly increasing the total number of annotated domains and other protein features available in architecture analysis mode. Furthermore, SMART’s vector-based protein display engine has been extended and updated to use the latest web technologies and the domain architecture analysis components have been optimized to handle the increased number of protein features available.

Highlights

Protein domain databases remain important annotation and research tools
SMART version 9 contains manually curated models for more than 1300 protein domains, with a topical set of 68 new models added since our last update article [1]
All the new models are for diverse recombinase families and subfamilies and as a set they provide a comprehensive overview of mobile element recombinases namely transposase, integrase, relaxase, resolvase, cas1 casposase and Xer like cellular recombinase

Summary

Introduction

Protein domain databases remain important annotation and research tools. The SMART database [5] integrates manually curated hidden Markov models [6,7] for many domains with a powerful web-based interface offering various analysis and visualization tools. SMART version 9 contains manually curated models for more than 1300 protein domains, with a topical set of 68 new models added since our last update article [1]. Further updates include the synchronization of the underlying protein databases with UniProt [2], Ensembl [3] and STRING [4], greatly increasing the total number of annotated domains and other protein features available in architecture analysis mode.

Results

Conclusion