Enzyme Engineering

Basheer, Soorej M.; Chellappan, Sreeja

doi:10.1007/978-981-10-4284-3_6

Cited by 12 publications

(8 citation statements)

References 48 publications

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“…In a related study of T1 lipase from Geobacillus zalihae , which has 95% sequence identity to GTL, the role of hydrophobic amino acids in the lid domain was explored. Single point mutations were made by replacing non-polar amino acids with polar amino acids of similar size (Table IV Rows [1][2][3][4][5][6][7]. While all the mutants had lower thermal stability compared to WT, two mutants had improved catalytic efficiency.…”

Section: Other Lipasesmentioning

confidence: 99%

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Engineering Lipases: walking the fine line between activity and stability

Dasetty

Blenner

Sarupria

2017

Mater. Res. Express

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Lipases are enzymes that hydrolyze lipids and have several industrial applications. There is a tremendous effort in engineering the activity, specificity and stability of lipases to render them functional in a variety of environmental conditions. In this review, we discuss the recent experimental and simulation studies focused on engineering lipases. Experimentally, mutagenesis studies have demonstrated that the activity, stability, and specificity of lipases can be modulated by mutations. It has been particularly challenging however, to elucidate the underlying mechanisms through which these mutations affect the lipase properties. We summarize results from experiments and molecular simulations highlighting the emerging picture to this end. We end the review with suggestions for future research which underscores the delicate balance of various facets in the lipase that affect their activity and stability necessitating the consideration of the enzyme as a network of interactions.

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Section: Other Lipasesmentioning

confidence: 99%

“…temperature range, pH conditions, substrate specificity, enantioselectivity, etc). 5 Enzyme structure plays the key role in determining the activity and stability of an enzyme. Therefore, understanding the relationship between enzyme structure, activity and stability is the holy grail of enzyme engineering.…”

Section: Introductionmentioning

confidence: 99%

Engineering Lipases: walking the fine line between activity and stability

Dasetty

Blenner

Sarupria

2017

Mater. Res. Express

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“…8−12 For example, engineered enzymes react faster and are more efficient. 13,14 Protein engineering is a promising field and has vast academic and industrial interests.…”

Section: Introductionmentioning

confidence: 99%

SCONES: Self-Consistent Neural Network for Protein Stability Prediction Upon Mutation

Samaga

Raghunathan

2021

J. Phys. Chem. B

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Engineering proteins to have desired properties by mutating amino acids at specific sites is commonplace. Such engineered proteins must be stable to function. Experimental methods used to determine stability at throughputs required to scan the protein sequence space thoroughly are laborious. To this end, many machine learning based methods have been developed to predict thermodynamic stability changes upon mutation. These methods have been evaluated for symmetric consistency by testing with hypothetical reverse mutations. In this work, we propose transitive data augmentation, evaluating transitive consistency with our new S transitive data set, and a new machine learning based method, the first of its kind, that incorporates both symmetric and transitive properties into the architecture. Our method, called SCONES, is an interpretable neural network that predicts small relative protein stability changes for missense mutations that do not significantly alter the structure. It estimates a residue’s contributions toward protein stability (ΔG) in its local structural environment, and the difference between independently predicted contributions of the reference and mutant residues is reported as ΔΔG. We show that this self-consistent machine learning architecture is immune to many common biases in data sets, relies less on data than existing methods, is robust to overfitting, and can explain a substantial portion of the variance in experimental data.

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“…Inspired by mechanical engineering, life science researchers have been trying to develop molecular robots that are designed to respond on their own to external environmental stimuli by processing molecular signals (Murata et al 2013). The usefulness and applications of existing enzymes are increased by enzyme engineering approaches that employ recombinant DNA technology (Basheer and Chellappan 2017;Arbige et al 2019;Maseko et al 2019;Mallajosyula et al 2020). Rational design and directed evolution are the two general adopted approaches of enzyme engineering (Labrou 2010;Platis and Labrou 2008;Vogel 2019).…”

Section: Introductionmentioning

confidence: 99%

Robotics for enzyme technology: innovations and technological perspectives

Dixit

Panchal

Pandey

et al. 2021

Appl Microbiol Biotechnol

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The use of robotics in the life science sector has created a considerable and significant impact on a wide range of research areas, including enzyme technology due to their immense applications in enzyme and microbial engineering as an indispensable tool in high-throughput screening applications. Scientists are experiencing the advanced applications of various biological robots (nanobots), fabricated based on bottom-up or top-down approaches for making nanotechnology scaffolds. Nanobots and enzyme-powered nanomotors are particularly attractive because they are self-propelled vehicles, which consume biocompatible fuels. These smart nanostructures are widely used as drug delivery systems for the efficient treatment of various diseases. This review gives insights into the escalating necessity of robotics and nanobots and their ever-widening applications in enzyme technology, including biofuel production and biomedical applications. It also offers brief insights into high-throughput robotic platforms that are currently being used in enzyme screening applications for monitoring and control of microbial growth conditions. Key points• Robotics and their applications in biotechnology are highlighted.• Robotics for high-throughput enzyme screening and microbial engineering are described.• Nanobots and enzyme-powered nanomotors as controllable drug delivery systems are reviewed.

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Enzyme Engineering

Cited by 12 publications

References 48 publications

Engineering Lipases: walking the fine line between activity and stability

Engineering Lipases: walking the fine line between activity and stability

SCONES: Self-Consistent Neural Network for Protein Stability Prediction Upon Mutation

Robotics for enzyme technology: innovations and technological perspectives

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