Evidence map›Paper›PMID 32601484›Full record

ArticleNature chemical biology2020

The bottromycin epimerase BotH defines a group of atypical α/β-hydrolase-fold enzymes.

Asfandyar Sikandar, Laura Franz, Sebastian Adam, Javier Santos-Aberturas, Liliya Horbal, Andriy Luzhetskyy, Andrew W Truman, Olga V Kalinina, Jesko Koehnke

Erratum issuedOpen access · greenAbstract read
PubMed Publisher
In one paragraph

Article in Nature chemical biology, 2020. 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 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
2.2field-weighted citation impact, top 14% 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

11 citing papers in PubMed, 23 citations in OpenAlex.

  1. Article
  2. Article
  3. Epimerisation in Peptide Synthesis.Molecules (Basel, Switzerland) · 2023
    Review
  4. Article
  5. Review
  6. Article
  7. Review
  8. Thiamyxins: Structure and Biosynthesis of Myxobacterial RNA-Virus Inhibitors.Angewandte Chemie (International ed. in English) · 2022
    Article
  9. Article
  10. Article
  11. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors at 3 institutions in 2 countries.

Asfandyar Sikandar *Workgroup Structural Biology of Biosynthetic Enzymes, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz Centre for Infection Research (HZI), Saarland University, Saarbrücken, Germany.
Laura Franz *Workgroup Structural Biology of Biosynthetic Enzymes, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz Centre for Infection Research (HZI), Saarland University, Saarbrücken, Germany.ORCID http://orcid.org/0000-0003-1649-3375
Sebastian AdamWorkgroup Structural Biology of Biosynthetic Enzymes, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz Centre for Infection Research (HZI), Saarland University, Saarbrücken, Germany.
Javier Santos-AberturasDepartment of Molecular Microbiology, John Innes Centre, Norwich, UK.ORCID http://orcid.org/0000-0002-6689-8111
Liliya HorbalDepartment of Microbial Natural Products, Actinobacteria Metabolic Engineering Group, HIPS, HZI, Saarland University, Saarbrücken, Germany.
Andriy LuzhetskyyDepartment of Microbial Natural Products, Actinobacteria Metabolic Engineering Group, HIPS, HZI, Saarland University, Saarbrücken, Germany.
Andrew W TrumanDepartment of Molecular Microbiology, John Innes Centre, Norwich, UK.ORCID http://orcid.org/0000-0001-5453-7485
Olga V KalininaDrug Bioinformatics Group, HIPS, HZI, Saarland University, Saarbrücken, Germany.
Jesko KoehnkeWorkgroup Structural Biology of Biosynthetic Enzymes, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz Centre for Infection Research (HZI), Saarland University, Saarbrücken, Germany. jesko.koehnke@glasgow.ac.uk.ORCID http://orcid.org/0000-0002-7153-1365
Helmholtz Centre for Infection Research · DESaarland University · DEJohn Innes Centre · GB

Funding

Biotechnology and Biological Sciences Research Council BBS/E/J/000PR9790
6 · The paper itself

Abstract

D-amino acids endow peptides with diverse, desirable properties, but the post-translational and site-specific epimerization of L-amino acids into their D-counterparts is rare and chemically challenging. Bottromycins are ribosomally synthesized and post-translationally modified peptides that have overcome this challenge and feature a D-aspartate (D-Asp), which was proposed to arise spontaneously during biosynthesis. We have identified the highly unusual α/β-hydrolase (ABH) fold enzyme BotH as a peptide epimerase responsible for the post-translational epimerization of L-Asp to D-Asp during bottromycin biosynthesis. The biochemical characterization of BotH combined with the structures of BotH and the BotH-substrate complex allowed us to propose a mechanism for this reaction. Bioinformatic analyses of BotH homologs show that similar ABH enzymes are found in diverse biosynthetic gene clusters. This places BotH as the founding member of a group of atypical ABH enzymes that may be able to epimerize non-Asp stereocenters across different families of secondary metabolites.

Indexed as

Aspartic AcidBacterial ProteinsCrystallography, X-RayEvolution, MolecularModels, MolecularMultigene FamilyPeptides, CyclicProtein ConformationProtein FoldingRacemases and EpimerasesStreptomycesSubstrate SpecificityAspartic AcidBacterial ProteinsbottromycinPeptides, CyclicRacemases and Epimerases

Identifiers

PMID32601484
OpenAlexW3037822125

What OpenQuestion holds

Textmetadata
Read underepoch 390

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.