ArticleProceedings of the National Academy of Sciences of the United States of America2007
Computationally designed libraries of fluorescent proteins evaluated by preservation and diversity of function.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed.
- GGAssembler: Precise and economical design and synthesis of combinatorial mutation libraries.Protein science : a publication of the Protein Society · 2024Article
- Interactive computational and experimental approaches improve the sensitivity of periplasmic binding protein-based nicotine biosensors for measurements in biofluids.Protein engineering, design & selection : PEDS · 2024Article
- Interactive computational and experimental approaches improve the sensitivity of periplasmic binding protein-based nicotine biosensors for measurements in biofluids.bioRxiv : the preprint server for biology · 2024Article
- Comparison of Rosetta flexible-backbone computational protein design methods on binding interactions.Proteins · 2020Article
- Enriching Peptide Libraries for Binding Affinity and Specificity Through Computationally Directed Library Design.Methods in molecular biology (Clifton, N.J.) · 2017Article
- Computational protein design with backbone plasticity.Biochemical Society transactions · 2016Review
- Protein engineering by highly parallel screening of computationally designed variants.Science advances · 2016Article
- Structure-based design of combinatorial mutagenesis libraries.Protein science : a publication of the Protein Society · 2015Article
- SwiftLib: rapid degenerate-codon-library optimization through dynamic programming.Nucleic acids research · 2015Article
- High-speed multiparameter photophysical analyses of fluorophore libraries.Analytical chemistry · 2015Article
- Article
- Engineering and characterizing monomeric fluorescent proteins for live-cell imaging applications.Nature protocols · 2014Article
- Structure-based redesign of the binding specificity of anti-apoptotic Bcl-x(L).Journal of molecular biology · 2013Article
- Computational protein design quantifies structural constraints on amino acid covariation.PLoS computational biology · 2013Article
- Serverification of molecular modeling applications: the Rosetta Online Server that Includes Everyone (ROSIE).PloS one · 2013Article
- Predictive Bcl-2 family binding models rooted in experiment or structure.Journal of molecular biology · 2012Article
- Designing specific protein-protein interactions using computation, experimental library screening, or integrated methods.Protein science : a publication of the Protein Society · 2012Review
- Combinatorial reshaping of the Candida antarctica lipase A substrate pocket for enantioselectivity using an extremely condensed library.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Recent advances in rational approaches for enzyme engineering.Computational and structural biotechnology journal · 2012Review
- Optimization of combinatorial mutagenesis.Journal of computational biology : a journal of computational molecular cell biology · 2011Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
To determine which of seven library design algorithms best introduces new protein function without destroying it altogether, seven combinatorial libraries of green fluorescent protein variants were designed and synthesized. Each was evaluated by distributions of emission intensity and color compiled from measurements made in vivo. Additional comparisons were made with a library constructed by error-prone PCR. Among the designed libraries, fluorescent function was preserved for the greatest fraction of samples in a library designed by using a structure-based computational method developed and described here. A trend was observed toward greater diversity of color in designed libraries that better preserved fluorescence. Contrary to trends observed among libraries constructed by error-prone PCR, preservation of function was observed to increase with a library's average mutation level among the four libraries designed with structure-based computational methods.
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Registered trials
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.