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Designed active-site library reveals thousands of functional GFP variants.
- Source :
- Nature Communications; 5/20/2023, Vol. 14 Issue 1, p1-13, 13p
- Publication Year :
- 2023
-
Abstract
- Mutations in a protein active site can lead to dramatic and useful changes in protein activity. The active site, however, is sensitive to mutations due to a high density of molecular interactions, substantially reducing the likelihood of obtaining functional multipoint mutants. We introduce an atomistic and machine-learning-based approach, called high-throughput Functional Libraries (htFuncLib), that designs a sequence space in which mutations form low-energy combinations that mitigate the risk of incompatible interactions. We apply htFuncLib to the GFP chromophore-binding pocket, and, using fluorescence readout, recover >16,000 unique designs encoding as many as eight active-site mutations. Many designs exhibit substantial and useful diversity in functional thermostability (up to 96 °C), fluorescence lifetime, and quantum yield. By eliminating incompatible active-site mutations, htFuncLib generates a large diversity of functional sequences. We envision that htFuncLib will be used in one-shot optimization of activity in enzymes, binders, and other proteins. Mutations in a protein active site can alter function in useful ways, but the active site is sensitive to changes. Here the authors present a general strategy to design combinatorial mutation libraries. Applied to GFP, the authors isolate thousands of fluorescent designs that exhibit large and useful changes in spectral properties. [ABSTRACT FROM AUTHOR]
- Subjects :
- SEQUENCE spaces
DESIGN exhibitions
MOLECULAR interactions
DIFFERENTIAL evolution
Subjects
Details
- Language :
- English
- ISSN :
- 20411723
- Volume :
- 14
- Issue :
- 1
- Database :
- Complementary Index
- Journal :
- Nature Communications
- Publication Type :
- Academic Journal
- Accession number :
- 163827115
- Full Text :
- https://doi.org/10.1038/s41467-023-38099-z