ReviewBiological chemistry2019
Computational design of structured loops for new protein functions.
Review in Biological chemistry, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Designing de novo TIM barrels: insights into stabilization, diversification, and functionalization strategies.Biochemical Society transactions · 2026Review
- De novo design of buttressed loops for sculpting protein functions.Nature chemical biology · 2024Article
- Sequence - dynamics - function relationships in protein tyrosine phosphatases.QRB discovery · 2024Article
- Comprehensive assessment of protein loop modeling programs on large-scale datasets: prediction accuracy and efficiency.Briefings in bioinformatics · 2023Article
- Determination of the optimal connector length to enhance stability of backbone-circularized granulocyte colony-stimulating factor.FEBS open bio · 2023Article
- Article
- Computational Protein Design for COVID-19 Research and Emerging Therapeutics.ACS central science · 2023Review
- Accurate positioning of functional residues with robotics-inspired computational protein design.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Extension of a de novo TIM barrel with a rationally designed secondary structure element.Protein science : a publication of the Protein Society · 2021Article
- Structural basis for peptide substrate specificities of glycosyltransferase GalNAc-T2.ACS catalysis · 2021Article
- Bioinformatic analysis of subfamily-specific regions in 3D-structures of homologs to study functional diversity and conformational plasticity in protein superfamilies.Computational and structural biotechnology journal · 2021Article
- The diversity of molecular interactions involving intrinsically disordered proteins: A molecular modeling perspective.Computational and structural biotechnology journal · 2021Review
- Current approaches to flexible loop modeling.Current research in structural biology · 2021Review
- New computational protein design methods for de novo small molecule binding sites.PLoS computational biology · 2020Article
- Expanding the space of protein geometries by computational design of de novo fold families.Science (New York, N.Y.) · 2020Article
- Comparison of Rosetta flexible-backbone computational protein design methods on binding interactions.Proteins · 2020Article
- Information theoretic measures for quantifying sequence-ensemble relationships of intrinsically disordered proteins.Protein engineering, design & selection : PEDS · 2019Article
- Advances in protein structure prediction and design.Nature reviews. Molecular cell biology · 2019Review
- Comparison of the structure and function of a chimeric peptide modified titanium surface.RSC advances · 2019Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
The ability to engineer the precise geometries, fine-tuned energetics and subtle dynamics that are characteristic of functional proteins is a major unsolved challenge in the field of computational protein design. In natural proteins, functional sites exhibiting these properties often feature structured loops. However, unlike the elements of secondary structures that comprise idealized protein folds, structured loops have been difficult to design computationally. Addressing this shortcoming in a general way is a necessary first step towards the routine design of protein function. In this perspective, we will describe the progress that has been made on this problem and discuss how recent advances in the field of loop structure prediction can be harnessed and applied to the inverse problem of computational loop design.
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Registered trials
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