ArticleJournal of molecular biology2010
Evolution of protein binding modes in homooligomers.
Article in Journal of molecular biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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Who cites it
42 citing papers in PubMed.
- Self-association and multimer formation in AtLEA4-5, a desiccation-induced intrinsically disordered protein from plants.Protein science : a publication of the Protein Society · 2024Article
- Molecular Modeling of Single- and Double-Hydrocarbon-Stapled Coiled-Coil Inhibitors against Bcr-Abl: Toward a Treatment Strategy for CML.The journal of physical chemistry. B · 2024Article
- Computational Modeling of Stapled Coiled-Coil Inhibitors Against Bcr-Abl: Toward a Treatment Strategy for CML.bioRxiv : the preprint server for biology · 2023Article
- Exploring structural features and potential lipid interactions of Pseudomonas aeruginosa type three secretion effector PemB by spectroscopic and calorimetric experiments.Protein science : a publication of the Protein Society · 2023Article
- Oligomeric interactions maintain active-site structure in a noncooperative enzyme family.The EMBO journal · 2022Article
- Article
- Molecular basis for protein-protein interactions.Beilstein journal of organic chemistry · 2021Review
- Quantifying the distribution of protein oligomerization degree reflects cellular information capacity.Scientific reports · 2020Article
- Evolution of protein interfaces in multimers and fibrils.The Journal of chemical physics · 2019Article
- A modified clear-native polyacrylamide gel electrophoresis technique to investigate the oligomeric state of MBP-5-HTProtein expression and purification · 2019Article
- Article
- Homo- and Heterodimerization of Proteins in Cell Signaling: Inhibition and Drug Design.Advances in protein chemistry and structural biology · 2018Review
- Asymmetric configurations in a reengineered homodimer reveal multiple subunit communication pathways in protein allostery.The Journal of biological chemistry · 2017Article
- Mechanistic Models Fit to Variable Temperature Calorimetric Data Provide Insights into Cooperativity.Biophysical journal · 2017Article
- SLG controls grain size and leaf angle by modulating brassinosteroid homeostasis in rice.Journal of experimental botany · 2016Article
- Predicted binding site information improves model ranking in protein docking using experimental and computer-generated target structures.BMC structural biology · 2015Article
- Weak conservation of structural features in the interfaces of homologous transient protein-protein complexes.Protein science : a publication of the Protein Society · 2015Article
- Structural Perspectives on the Evolutionary Expansion of Unique Protein-Protein Binding Sites.Biophysical journal · 2015Article
- Dimerization of lipocalin allergens.Scientific reports · 2015Article
- Evolutionary meandering of intermolecular interactions along the drift barrier.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
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Authors and funding
4 authors.
Funding
Abstract
The evolution of protein interactions cannot be deciphered without a detailed analysis of interaction interfaces and binding modes. We performed a large-scale study of protein homooligomers in terms of their symmetry, interface sizes, and conservation of binding modes. We also focused specifically on the evolution of protein binding modes from nine families of homooligomers and mapped 60 different binding modes and oligomerization states onto the phylogenetic trees of these families. We observed a significant tendency for the same binding modes to be clustered together and conserved within clades on phylogenetic trees; this trend is especially pronounced for close homologs with 70% sequence identity or higher. Some binding modes are conserved among very distant homologs, pointing to their ancient evolutionary origin, while others are very specific for a certain phylogenetic group. Moreover, we found that the most ancient binding modes have a tendency to involve symmetrical (isologous) homodimer binding arrangements with larger interfaces, while recently evolved binding modes more often exhibit asymmetrical arrangements and smaller interfaces.
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