Evidence map›Paper›PMID 34076590›Full record

ArticleActa crystallographica. Section D, Structural biology2021

Crystallographic fragment screening-based study of a novel FAD-dependent oxidoreductase from Chaetomium thermophilum.

Leona Švecová, Lars Henrik Østergaard, Tereza Skálová, Kirk Matthew Schnorr, Tomáš Koval', Petr Kolenko, Jan Stránský, David Sedlák, Jarmila Dušková, Mária Trundová and 2 more

Erratum issuedOpen access · hybridAbstract read
In one paragraph

Article in Acta crystallographica. Section D, Structural biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
0.6field-weighted citation impact, top 38% of its field
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

8 citing papers in PubMed, 9 citations in OpenAlex.

  1. Article
  2. Comparison of two peroxidases with high potential for biotechnology applications - HRPComputational and structural biotechnology journal · 2024
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  5. Tetracycline-modifying enzyme SmTetX from Stenotrophomonas maltophilia.Acta crystallographica. Section F, Structural biology communications · 2023
    Article
  6. Review
  7. PAIREF: paired refinement also for Phenix users.Acta crystallographica. Section F, Structural biology communications · 2021
    Article
  8. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

12 authors at 3 institutions in 2 countries.

Leona ŠvecováInstitute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0002-2078-5277
Lars Henrik ØstergaardNovozymes A/S, Biologiens Vej 2, 2800 Kgs. Lyngby, Denmark.ORCID 0000-0003-4210-2374
Tereza SkálováInstitute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0003-3186-2431
Kirk Matthew SchnorrNovozymes A/S, Biologiens Vej 2, 2800 Kgs. Lyngby, Denmark.ORCID 0000-0002-2694-6772
Tomáš Koval'Institute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0002-2836-3765
Petr KolenkoInstitute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0002-4619-9276
Jan StránskýInstitute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0001-5139-2567
David SedlákCZ-OPENSCREEN: National Infrastructure for Chemical Biology, Institute of Molecular Genetics of the Czech Academy of Sciences, v.v.i., Vídeňská 1083, 142 20 Prague, Czech Republic.ORCID 0000-0003-0074-335X
Jarmila DuškováInstitute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0001-9261-3653
Mária TrundováInstitute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0003-1351-5719
Jindřich HašekInstitute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0001-7973-1815
Jan DohnálekInstitute of Biotechnology of the Czech Academy of Sciences, v.v.i., Průmyslová 595, 252 50 Vestec, Czech Republic.ORCID 0000-0002-8083-7980
Czech Academy of Sciences · CZNovozymes (Denmark) · DKCzech Academy of Sciences, Institute of Molecular Genetics · CZ

Funding

Akademie Věd České Republiky, Institute of Biotechnology of the Czech Academy of Sciences RVO: 86652036Akademie Věd České Republiky, Institute of Molecular Genetics of the Czech Academy of Sciences RVO: 68378050-KAV-NPUEuropean Regional Development Fund CZ.02.1.01/0.0/0.0/15_003/0000447European Regional Development Fund CZ.02.1.01/0.0/0.0/16_013/0001776European Regional Development Fund CZ.1.05/1.1.00/02.0109Grantová Agentura České Republiky SGS19/189/OHK4/3T/14Ministry of Education, Youth and Sports of the Czech Republic CZ.02.1.01/0.0/0.0/16_019/0000778Ministry of Education, Youth and Sports of the Czech Republic LM201504Ministry of Education, Youth and Sports of the Czech Republic LM201506Ministry of Education, Youth and Sports of the Czech Republic LM2018127Ministry of Education, Youth and Sports of the Czech Republic LM2018130
6 · The paper itself

Abstract

The FAD-dependent oxidoreductase from Chaetomium thermophilum (CtFDO) is a novel thermostable glycoprotein from the glucose-methanol-choline (GMC) oxidoreductase superfamily. However, CtFDO shows no activity toward the typical substrates of the family and high-throughput screening with around 1000 compounds did not yield any strongly reacting substrate. Therefore, protein crystallography, including crystallographic fragment screening, with 42 fragments and 37 other compounds was used to describe the ligand-binding sites of CtFDO and to characterize the nature of its substrate. The structure of CtFDO reveals an unusually wide-open solvent-accessible active-site pocket with a unique His-Ser amino-acid pair putatively involved in enzyme catalysis. A series of six crystal structures of CtFDO complexes revealed five different subsites for the binding of aryl moieties inside the active-site pocket and conformational flexibility of the interacting amino acids when adapting to a particular ligand. The protein is capable of binding complex polyaromatic substrates of molecular weight greater than 500 Da.

Indexed as

Models, MolecularBinding SitesChaetomiumFlavin-Adenine DinucleotideFungal ProteinsOxidoreductasesProtein ConformationFlavin-Adenine DinucleotideFungal ProteinsOxidoreductasesChaetomium thermophilumcrystallographic fragment screeningFAD-dependent oxidoreductasesGMC oxidoreductases

Identifiers

PMID34076590
PMCPMC8171062
OpenAlexW3163006333

What OpenQuestion holds

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Registered trials

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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.