Evidence map›Paper›PMID 42109164›Full record

ArticleNucleic acids research2026

EnzymeMiner 2.0: advancing automated enzyme discovery with expansive sequence mining and smart property analysis.

Monika Rosinska, Lucie Svobodova, Simeon Borko, David Lacko, Joan Planas-Iglesias, Sérgio M Marques, Petr Kabourek, Baoyan Liu, Karen Pailozian, Jiri Damborsky and 2 more

Abstract read
In one paragraph

Article in Nucleic acids research, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

12 authors.

Monika RosinskaLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.
Lucie SvobodovaLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.
Simeon BorkoLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.
David LackoLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.ORCID 0009-0007-0332-9193
Joan Planas-IglesiasLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.
Sérgio M MarquesLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.
Petr KabourekLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.
Baoyan LiuLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.
Karen PailozianLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.
Jiri DamborskyLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.ORCID 0000-0002-7848-8216
Stanislav MazurenkoLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.ORCID 0000-0003-3659-4819
David BednarLoschmidt Laboratories, Department of Experimental Biology & RECETOX, Faculty of Science, Masaryk University, Brno, 625 00, Czech Republic.ORCID 0000-0002-6803-0340

Funding

Grant Agency of the Czech Republic 25-18233MHorizon 2020 857560HORIZON EUROPE Framework Programme 101136607
6 · The paper itself

Abstract

Enhancing enzymes to improve desired properties remains an expensive and time-consuming process. Scanning databases of known protein sequences to find enzymes with similar catalytic activity and enhanced properties is an efficient and valuable approach. The EnzymeMiner web server has proven integral as an automated, user-friendly tool that identifies enzymes with the desired catalytic activity from provided sequences and essential residues. Here, we introduce EnzymeMiner 2.0 that builds upon its predecessor, retaining its original functionality, while introducing several key improvements: (i) significantly expanded searched protein space; (ii) annotation of discovered sequences with predictions of the melting temperature, optimal pH, catalytic activity and efficiency, and aggregation propensity with state-of-the-art computational tools; and (iii) smart automatic sequence prioritization and filtering based on user-defined goals or a set of predefined scenarios. With all these enhancements, EnzymeMiner 2.0 aims to remain among the leading solutions for efficient discovery of novel enzymes. The server is freely accessible at https://loschmidt.chemi.muni.cz/enzymeminer/.

Indexed as

Data MiningEnzymesSequence Analysis, ProteinSoftwareDatabases, ProteinHydrogen-Ion ConcentrationInternetEnzymes

Identifiers

PMID42109164
PMCPMC13355053

What OpenQuestion holds

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LicenceCC BY
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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.