ArticleNucleic acids research2012
PASS2 version 4: an update to the database of structure-based sequence alignments of structural domain superfamilies.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed.
- GenDiS3 database: census on the prevalence of protein domain superfamilies of known structure in the entire sequence database.Database : the journal of biological databases and curation · 2025Article
- PASS2: update of database of structure-based sequence alignments.Database : the journal of biological databases and curation · 2025Article
- A census of actin-associated proteins in humans.Frontiers in cell and developmental biology · 2023Article
- PASS2.7: a database containing structure-based sequence alignments and associated features of protein domain superfamilies from SCOPe.Database : the journal of biological databases and curation · 2022Article
- PASS2 version 6: a database of structure-based sequence alignments of protein domain superfamilies in accordance with SCOPe.Database : the journal of biological databases and curation · 2019Article
- GenDiS database update with improved approach and features to recognize homologous sequences of protein domain superfamilies.Database : the journal of biological databases and curation · 2019Article
- PASS2 database for the structure-based sequence alignment of distantly related SCOP domain superfamilies: update to version 5 and added features.Nucleic acids research · 2016Article
- The value of protein structure classification information-Surveying the scientific literature.Proteins · 2015Article
- Article
- LenVarDB: database of length-variant protein domains.Nucleic acids research · 2014Article
- Rebelling for a reason: protein structural "outliers".PloS one · 2013Article
- Capreomycin susceptibility is increased by TlyA-directed 2'-O-methylation on both ribosomal subunits.Molecular microbiology · 2012Article
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Abstract
Accurate structure-based sequence alignments of distantly related proteins are crucial in gaining insight about protein domains that belong to a superfamily. The PASS2 database provides alignments of proteins related at the superfamily level and are characterized by low sequence identity. We thus report an automated, updated version of the superfamily alignment database known as PASS2.4, consisting of 1961 superfamilies and 10,569 protein domains, which is in direct correspondence with SCOP (1.75) database. Database organization, improved methods for efficient structure-based sequence alignments and the analysis of extreme distantly related proteins within superfamilies formed the focus of this update. Alignment of family-specific functional residues can be realized using such alignments and is shown using one superfamily as an example. The database of alignments and other related features can be accessed at http://caps.ncbs.res.in/pass2/.
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