ArticleDatabase : the journal of biological databases and curation2011
3DSwap: curated knowledgebase of proteins involved in 3D domain swapping.
Article in Database : the journal of biological databases and curation, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Structural and Functional Interrogation of ActiveBiomolecules · 2026Article
- Insights into mechanisms and significance of domain swapping from emerging examples in the Mog1p/PsbP-like fold.Biochemical and biophysical research communications · 2025Review
- SCOPe: improvements to the structural classification of proteins - extended database to facilitate variant interpretation and machine learning.Nucleic acids research · 2022Article
- Human Cellular Retinol Binding Protein II Forms a Domain-Swapped Trimer Representing a Novel Fold and a New Template for Protein Engineering.Chembiochem : a European journal of chemical biology · 2020Article
- 3D domain swapping in the TIM barrel of the α subunit of Streptococcus pneumoniae tryptophan synthase.Acta crystallographica. Section D, Structural biology · 2020Article
- Tandem domain swapping: determinants of multidomain protein misfolding.Current opinion in structural biology · 2019Review
- SCOPe: classification of large macromolecular structures in the structural classification of proteins-extended database.Nucleic acids research · 2019Article
- Editorial: Improving Neuropharmacology using Big Data, Machine Learning and Computational Algorithms.Current neuropharmacology · 2017Article
- Understanding protein domain-swapping using structure-based models of protein folding.Progress in biophysics and molecular biology · 2017Review
- LinkProt: a database collecting information about biological links.Nucleic acids research · 2017Article
- Translational bioinformatics in the era of real-time biomedical, health care and wellness data streams.Briefings in bioinformatics · 2017Article
- Article
- Linking in domain-swapped protein dimers.Scientific reports · 2016Article
- Domain-Swapped Dimers of Intracellular Lipid-Binding Proteins: Evidence for Ordered Folding Intermediates.Structure (London, England : 1993) · 2016Article
- Interpreting functional effects of coding variants: challenges in proteome-scale prediction, annotation and assessment.Briefings in bioinformatics · 2016Review
- Genome-Wide Prediction and Analysis of 3D-Domain Swapped Proteins in the Human Genome from Sequence Information.PloS one · 2016Article
- Energetic Calculations to Decipher pH-Dependent Oligomerization and Domain Swapping of Proteins.PloS one · 2015Article
- Understanding protein-nanoparticle interaction: a new gateway to disease therapeutics.Bioconjugate chemistry · 2014Article
- Structural characterization of V57D and V57P mutants of human cystatin C, an amyloidogenic protein.Acta crystallographica. Section D, Biological crystallography · 2013Article
- Evolutionary, physicochemical, and functional mechanisms of protein homooligomerization.Progress in molecular biology and translational science · 2013Review
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6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Three-dimensional domain swapping is a unique protein structural phenomenon where two or more protein chains in a protein oligomer share a common structural segment between individual chains. This phenomenon is observed in an array of protein structures in oligomeric conformation. Protein structures in swapped conformations perform diverse functional roles and are also associated with deposition diseases in humans. We have performed in-depth literature curation and structural bioinformatics analyses to develop an integrated knowledgebase of proteins involved in 3D domain swapping. The hallmark of 3D domain swapping is the presence of distinct structural segments such as the hinge and swapped regions. We have curated the literature to delineate the boundaries of these regions. In addition, we have defined several new concepts like 'secondary major interface' to represent the interface properties arising as a result of 3D domain swapping, and a new quantitative measure for the 'extent of swapping' in structures. The catalog of proteins reported in 3DSwap knowledgebase has been generated using an integrated structural bioinformatics workflow of database searches, literature curation, by structure visualization and sequence-structure-function analyses. The current version of the 3DSwap knowledgebase reports 293 protein structures, the analysis of such a compendium of protein structures will further the understanding molecular factors driving 3D domain swapping.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.