Zbyněk Prokop

Unattended droplet-microfluidic Bayesian optimization of a glycerol detection cascade matched design of experiments (DoE) with one third of the conditions; a second cascade used DoE with Raman readout.

This study uses ultrahigh-throughput screening to identify mutations in dehalogenases that modulate substrate access and binding, revealing distal functional effects on enzyme dynamics.

This paper designs next-generation thrombolytic proteases with improved catalytic efficiency, fibrin selectivity, and inhibition resistance through multi-objective enzyme engineering.

This study reports co-crystal structures of a bioluminescent energy-transfer complex in Renilla reniformis, revealing the spatial arrangement of donor-acceptor chromophores and their role in efficient radiationless energy transfer.

The paper compares biochemical and immunological properties of engineered low-immunogenic staphylokinase variants to identify the most promising for thrombolytic therapy.

This study shows taurine inhibits ApoE4 aggregation and reduces its pathophysiological effects, similar to tramiprosate and 3-sulfopropanoic acid.

This study investigates the conformational flexibility of staphylokinase variants to explain their reduced immunogenicity and altered properties.

The paper introduces SoluProtMut, a Siamese deep learning model for predicting solubility effects of protein mutations, validated experimentally on 277 mutants.

This paper shows that replacing histidine with phenylalanine in haloalkane dehalogenase reverses the SN2 mechanism by remodeling the active site, enabling reversible reactions for sustainable transhalogenation.

This study identifies conformational dynamics as a key determinant of luciferase catalytic efficiency and light-emission stability, revealing a trade-off between oxygen affinity and enzyme longevity.

This paper enhances fluorinase catalytic efficiency by engineering mutants and optimizing reaction conditions, achieving a 60-fold increase in turnover rate.

The paper identifies the origin of a luciferase gene from haloalkane dehalogenases in brittle stars and shows parallel evolution of bioluminescence across distant species.

This paper develops a deep neural network predictor, AggreProt, to identify aggregation-prone regions in proteins and demonstrates its utility in designing mutations to suppress aggregation.

This study investigates the role of the SAP domain in Ku-DNA interaction phases, showing it facilitates initial binding but not sliding, and finds that reduced loading efficiency does not impair NHEJ or telomere maintenance in Arabidopsis.

The paper investigates how the C112R mutation in ApoE4 causes aggregation and shows that tramiprosate reduces this aggregation.