An iterative computational design approach to increase the thermal endurance of a mesophilic enzyme

Biotechnology for Biofuels
Deanne W SammondYannick J Bomble

Abstract

Strategies for maximizing the microbial production of bio-based chemicals and fuels include eliminating branched points to streamline metabolic pathways. While this is often achieved by removing key enzymes, the introduction of nonnative enzymes can provide metabolic shortcuts, bypassing branched points to decrease the production of undesired side-products. Pyruvate decarboxylase (PDC) can provide such a shortcut in industrially promising thermophilic organisms; yet to date, this enzyme has not been found in any thermophilic organism. Incorporating nonnative enzymes into host organisms can be challenging in cases such as this, where the enzyme has evolved in a very different environment from that of the host. In this study, we use computational protein design to engineer the Zymomonas mobilis PDC to resist thermal denaturation at the growth temperature of a thermophilic host. We generate thirteen PDC variants using the Rosetta protein design software. We measure thermal stability of the wild-type PDC and PDC variants using circular dichroism. We then measure and compare enzyme endurance for wild-type PDC with the PDC variants at an elevated temperature of 60 °C (thermal endurance) using differential interference contrast imagin...Continue Reading

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Citations

Nov 20, 2018·Current Protein & Peptide Science·Rajeshwari Sinha, Pratyoosh Shukla
Sep 11, 2019·International Journal of Biological Macromolecules·Felipe de SalasSusana Camarero

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Methods Mentioned

BETA
circular dichroism
X-ray
size-exclusion chromatography
differential scanning calorimetry
PCR
FRET
static light scattering
protein folding

Software Mentioned

CAD
Origin
Unique
PyMOL
F2MTZ
GraphPad
CTRUNCATE
Prism
REFMAC5
MOLREP

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