3D domain swapping: As domains continue to swap

By Yanshun Liu, David S. Eisenberg. Protein Science, 2002

688 citations recorded by the source corpus.

Subfields: Ecology, Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/1c6e18b7dff03caeea8d4a524ae4dd27a98082ae

How researchers see this paper

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In Ecology

1. Torsten Schwede
2. Martin Weigt
3. H. Szurmant
4. Alexander Schug

In Genetics

1. Martin Weigt
2. Alexander Schug
3. H. Szurmant
4. Guido Uguzzoni
5. J. Shorter
6. Nick V. Grishin
7. Lisa N. Kinch
8. Torsten Schwede

In Molecular Biology

1. Nick V. Grishin
2. Lisa N. Kinch
3. Torsten Schwede
4. Andriy Kryshtafovych
5. Jimin Pei
6. Bong-Hyun Kim
7. Martin Weigt
8. Yang Zhang

Citations in the corpus

• Sequence and structural analysis of BTB domain proteins (2005, background): “The strand-exchanged amino terminus is likely to have arisen from a domain swapping mechanism [57].”
• Sequence-similar, structure-dissimilar protein pairs in the PDB (2007, background): “‘‘Domain-swap’’ is a sub-category of ‘‘inter-chain’’ interactions, where only one of the structures in a pair is domain-swapped.21 ,22 In rare instances both structures are domain-swapped, but with a different interface.”
• CASP9 Target Classification (2011, methodology): “However, the drawbacks of using EFhands structures as templates are (1) low structural similarities to templates and difficulty in determining which EF-hand structures serve as best templates, (2) incorrect domain orientations in templates and difficulty in modeling correct domain interactions based”
• The tip of the iceberg: RNA-binding proteins with prion-like domains in neurodegenerative disease (2012, background): “…amino acid composition requirement of the Alberti algorithm. proteins and can promote the polymerization of filamentous structures in various designed and natural proteins (Guo and Eisenberg, 2006; Lee and Eisenberg, 2003; Liu and Eisenberg, 2002; Nelson and Eisenberg, 2006; Ogihara et al., 2001).”
• Analysis of CASP8 targets, predictions and assessment methods (2009, background): “These regions were frequently involved in a domain swap (16).”
• Large-scale identification of coevolution signals across homo-oligomeric protein interfaces by direct coupling analysis (2017, background): “, by the mechanism of domain swapping (30), where internal contacts of the monomer become interface contacts in the dimer].”
• Concentration-dependent oligomerization of cross-linked complexes between ferredoxin and ferredoxin-NADP+ reductase. (2013, background): “and economic ways to produce large protein interaction networks and molecular machineries [8,12].”