A5003228246- Bacteriophages and microbial interactions
- Modular Robots and Swarm Intelligence
- Advanced Materials and Mechanics
- RNA and protein synthesis mechanisms
- Advanced Theoretical and Applied Studies in Material Sciences and Geometry
- Plant nutrient uptake and metabolism
- Enzyme Structure and Function
- Monoclonal and Polyclonal Antibodies Research
- Supramolecular Self-Assembly in Materials
- Nanocluster Synthesis and Applications
- Fluid Dynamics Simulations and Interactions
- Protein Structure and Dynamics
- Enzyme Catalysis and Immobilization
- Plant Molecular Biology Research
- RNA modifications and cancer
- Photosynthetic Processes and Mechanisms
- Microbial Metabolic Engineering and Bioproduction
- Virus-based gene therapy research
- Legume Nitrogen Fixing Symbiosis
- Innovative Microfluidic and Catalytic Techniques Innovation
- HIV Research and Treatment
- RNA Interference and Gene Delivery
- Mitochondrial Function and Pathology
- Biochemical Acid Research Studies
- Advanced Electron Microscopy Techniques and Applications
University of Washington
2012-2019
Institut de Biologie Moléculaire et Cellulaire
2015
Nature provides many examples of self- and co-assembling protein-based molecular machines, including icosahedral protein cages that serve as scaffolds, enzymes, compartments for essential biochemical reactions virus capsids, which encapsidate protect viral genomes mediate entry into host cells. Inspired by these natural materials, we report the computational design experimental characterization co-assembling, two-component, 120-subunit nanostructures with weights (1.8 to 2.8 megadaltons)...
We describe a computationally designed enzyme, formolase (FLS), which catalyzes the carboligation of three one-carbon formaldehyde molecules into one three-carbon dihydroxyacetone molecule. The existence FLS enables design new carbon fixation pathway, consisting small number thermodynamically favorable chemical transformations that convert formate sugar in central metabolism. pathway is predicted to use more efficiently and with less backward flux than any naturally occurring assimilation...
Abstract The development of native-like HIV-1 envelope (Env) trimer antigens has enabled the induction neutralizing antibody (NAb) responses against neutralization-resistant strains in animal models. However, NAb are relatively weak and narrow specificity. Displaying a multivalent fashion on nanoparticles (NPs) is an established strategy to increase their immunogenicity. Here we present design characterization two-component protein NPs displaying 20 stabilized SOSIP trimers from various...
Tandem repeats (TRs) have extremely high mutation rates and are often considered to be neutrally evolving DNA. However, in coding regions, TR copy number mutations can significantly affect phenotype may facilitate rapid adaptation new environments. In several human genes, that expand polyglutamine (polyQ) tracts beyond a certain threshold cause incurable neurodegenerative diseases. PolyQ-containing proteins exist at considerable frequency eukaryotes, yet the phenotypic consequences of...
We recently reported the development of a computational method for design coassembling multicomponent protein nanomaterials. While four such materials were validated at high-resolution by X-ray crystallography, low yield soluble prevented structure determination fifth designed material, T33-09. Here we report and crystal T33-31, variant T33-09 with improved resulting from redesign efforts focused on mutating solvent-exposed side chains to charged amino acids. The is found match model...
Abstract It is widely appreciated that short tandem repeat (STR) variation underlies substantial phenotypic in organisms. Some propose the high mutation rates of STRs functional genomic regions facilitate evolutionary adaptation. Despite their rate, some show little to no populations. One such STR occurs Arabidopsis thaliana gene PFT1 (MED25), where it encodes an interrupted polyglutamine tract. Although large (∼270 bp), and thus expected be extremely variable, shows only minuscule across A....
Proteins designed for supramolecular assembly provide a simple means to immobilize and organize enzymes biotechnology applications. We have genetically fused the thermostable alcohol dehydrogenase D (AdhD) from Pyrococcus furiosus computationally cage-forming protein (O3-33). The trimeric form of O3-33–AdhD fusion was most active in solution. immobilization on bioelectrodes leads doubling electrochemical operational stability as compared unfused control proteins. Thus, self-assembling...
ABSTRACT It is widely appreciated that short tandem repeat (STR) variation underlies substantial phenotypic in organisms. Some propose the high mutation rates of STRs functional genomic regions facilitate evolutionary adaptation. Despite their rate, some show little to no populations. One such STR occurs Arabidopsis thaliana gene PFT1 ( MED25 ), where it encodes an interrupted polyglutamine tract. Though large (∼270 bp), and thus expected be extremely variable, shows only minuscule across A....