Abstract
Chromatin remodeling complexes facilitate the access of condensed genomic DNA during transcription, replication, and repair, by altering the histone-DNA contacts in the nucleosome structures. SWI/SNF (SWItch/Sucrose Non-Fermentable) family of ATP dependent chromatin remodeling complexes have been documented for their tumour suppressor function. Recent studies have reported the high frequency of cancer causing mutations in this protein family. There exist multiple subunits for this complex and can form context-dependent sub-complexes. The cataloguing of individual subunits of this complex is essential for understanding their specific functions and their mechanism of action during chromatin remodeling. This would also facilitate further studies to characterize cancer causing mutations in SWI/SNF subunits. In the current study, a database containing information on the subunits of SWI/SNF-α (BRG1/BRM-Associated Factors (BAF)) and SWI/SNF-β (Polybromo-Associated BAF (PBAF)) sub classes of SWI/SNF family has been curated and catalogued. The database hosts information on 27 distinct SWI/SNF subunits from 20 organisms spanning a wide evolutionary range of eukaryotes. A non-redundant set of 522 genes coding for SWI/SNF subunits have been documented in the database. A detailed annotation on each subunit, including basic protein/gene information, protein sequence, functional domains, homologs and missense mutations of human proteins have been provided with a user-friendly graphical interface. The SWI/SNF Infobase presented here, would be a first of its kind exclusive information portal on SWI/SNF complex subunits and would be a valuable resource for the research community working on chromatin remodeling. The database is available at http://scbt.sastra.edu/swisnfdb/index.php.
Highlights
The SWI/SNF complexes are an evolutionarily conserved family of nucleosome remodeling factors that use the energy derived from ATP hydrolysis to remodel chromatin [1]
The SWI/SNF Infobase currently contains information on 27 distinct subunits contributing to the formation of SWI/SNF complex (Table 1)
The database covers 516 SWI/SNF subunits from 20 different organisms, spanning a wide evolutionary range of eukaryotes (Table 2)
Summary
The SWI/SNF complexes are an evolutionarily conserved family of nucleosome remodeling factors that use the energy derived from ATP hydrolysis to remodel chromatin [1]. The biochemical activities mediated by this family of remodeling complex include sliding the nucleosomes, evicting the histone octamer and removing the H2A/H2B dimers [2,3,4] and these.
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