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Computational tools for designing and engineering enzymes

Current opinion in chemical biology, 2014-04, Vol.19, p.8-16

2014

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HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information

Nucleic acids research, 2018-07, Vol.46 (W1), p.W356-W362

2018

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Multi-pathogen infections and Alzheimer's disease

Microbial cell factories, 2021-01, Vol.20 (1), p.25-25, Article 25

2021

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Computational Design of Stable and Soluble Biocatalysts

ACS catalysis, 2019-02, Vol.9 (2), p.1033-1054

2019

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Strategies for Stabilization of Enzymes in Organic Solvents

ACS catalysis, 2013-12, Vol.3 (12), p.2823-2836

2013

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CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories

Bioinformatics, 2018-10, Vol.34 (20), p.3586-3588

2018

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CAVER 3.0: a tool for the analysis of transport pathways in dynamic protein structures

PLoS computational biology, 2012-10, Vol.8 (10), p.e1002708

2012

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Engineering the protein dynamics of an ancestral luciferase

Nature communications, 2021-06, Vol.12 (1), p.1-16, Article 3616

2021

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PredictSNP: robust and accurate consensus classifier for prediction of disease-related mutations

PLoS computational biology, 2014-01, Vol.10 (1), p.e1003440

2014

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Immobilized Synthetic Pathway for Biodegradation of Toxic Recalcitrant Pollutant 1,2,3-Trichloropropane

Environmental science & technology, 2014-06, Vol.48 (12), p.6859-6866

2014

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HotSpot Wizard 2.0: automated design of site-specific mutations and smart libraries in protein engineering

Nucleic acids research, 2016-07, Vol.44 (W1), p.W479-W487

2016

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CAVER: Algorithms for Analyzing Dynamics of Tunnels in Macromolecules

IEEE/ACM transactions on computational biology and bioinformatics, 2016-05, Vol.13 (3), p.505-517

2016

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FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants

PLoS computational biology, 2015-11, Vol.11 (11), p.e1004556

2015

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Ancestral Haloalkane Dehalogenases Show Robustness and Unique Substrate Specificity

Chembiochem : a European journal of chemical biology, 2017-07, Vol.18 (14), p.1448-1456

2017

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Exploring the challenges of computational enzyme design by rebuilding the active site of a dehalogenase

Proceedings of the National Academy of Sciences - PNAS, 2019-01, Vol.116 (2), p.389-394

2019

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Computational tools for designing and engineering biocatalysts

Current opinion in chemical biology, 2009-02, Vol.13 (1), p.26-34

2009

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CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures

Bioinformatics (Oxford, England), 2014-09, Vol.30 (18), p.2684-2685

2014

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Structural Biology and Protein Engineering of Thrombolytics

Computational and structural biotechnology journal, 2019-01, Vol.17, p.917-938

2019

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Exacerbation of substrate toxicity by IPTG in Escherichia coli BL21(DE3) carrying a synthetic metabolic pathway

Microbial cell factories, 2015-12, Vol.14 (1), p.201, Article 201

2015

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Impact of the access tunnel engineering on catalysis is strictly ligand‐specific

The FEBS journal, 2018-04, Vol.285 (8), p.1456-1476

2018

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Substrate inhibition by the blockage of product release and its control by tunnel engineering

RSC chemical biology, 2021-04, Vol.2 (2), p.645-655

2021

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Haloalkane dehalogenases: Biotechnological applications

Biotechnology journal, 2013-01, Vol.8 (1), p.32-45

2013

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FireProtDB: database of manually curated protein stability data

Nucleic acids research, 2021-01, Vol.49 (D1), p.D319-D324

2021

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Gram-scale production of recombinant microbial enzymes in shake flasks

FEMS microbiology letters, 2018-02, Vol.365 (2), p.1

2018

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Comparison of catalysis by haloalkane dehalogenases in aqueous solutions of deep eutectic and organic solvents

Green chemistry : an international journal and green chemistry resource : GC, 2014-01, Vol.16 (5), p.2754-2761

2014

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Computational tools for designing and engineering enzymes

HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information

Multi-pathogen infections and Alzheimer's disease

Computational Design of Stable and Soluble Biocatalysts

Strategies for Stabilization of Enzymes in Organic Solvents

CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories

CAVER 3.0: a tool for the analysis of transport pathways in dynamic protein structures

Engineering the protein dynamics of an ancestral luciferase

PredictSNP: robust and accurate consensus classifier for prediction of disease-related mutations

Immobilized Synthetic Pathway for Biodegradation of Toxic Recalcitrant Pollutant 1,2,3-Trichloropropane

HotSpot Wizard 2.0: automated design of site-specific mutations and smart libraries in protein engineering

CAVER: Algorithms for Analyzing Dynamics of Tunnels in Macromolecules

FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants

Ancestral Haloalkane Dehalogenases Show Robustness and Unique Substrate Specificity

Exploring the challenges of computational enzyme design by rebuilding the active site of a dehalogenase

Computational tools for designing and engineering biocatalysts

CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures

Structural Biology and Protein Engineering of Thrombolytics

Exacerbation of substrate toxicity by IPTG in Escherichia coli BL21(DE3) carrying a synthetic metabolic pathway

Impact of the access tunnel engineering on catalysis is strictly ligand‐specific

Substrate inhibition by the blockage of product release and its control by tunnel engineering

Haloalkane dehalogenases: Biotechnological applications

FireProtDB: database of manually curated protein stability data

Gram-scale production of recombinant microbial enzymes in shake flasks

Comparison of catalysis by haloalkane dehalogenases in aqueous solutions of deep eutectic and organic solvents

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