Evidence map›Paper›PMID 33514861›Full record

ArticleCommunications biology2021

A promiscuous ancestral enzyme´s structure unveils protein variable regions of the highly diverse metallo-β-lactamase family.

Pablo Perez-Garcia, Stefanie Kobus, Christoph G W Gertzen, Astrid Hoeppner, Nicholas Holzscheck, Christoph Heinrich Strunk, Harald Huber, Karl-Erich Jaeger, Holger Gohlke, Filip Kovacic and 3 more

Open access · goldAbstract read
In one paragraph

Article in Communications biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
1.7field-weighted citation impact, top 17% 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

13 citing papers in PubMed, 28 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Multifunctional Biocatalysts for Organic Synthesis.Journal of the American Chemical Society · 2024
    Review
  8. Article
  9. Article
  10. Review
  11. Article
  12. Review
  13. β-Lactam Resistance inJournal of bacteriology · 2022
    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

13 authors at 3 institutions in 1 country.

Pablo Perez-GarciaDepartment of Microbiology and Biotechnology, University of Hamburg, Ohnhorststrasse 18, 22609, Hamburg, Germany.ORCID http://orcid.org/0000-0003-2248-3544
Stefanie KobusCenter for Structural Studies (CSS), Heinrich Heine University Düsseldorf, Universitätsstrasse 1, 40225, Düsseldorf, Germany.
Christoph G W GertzenCenter for Structural Studies (CSS), Heinrich Heine University Düsseldorf, Universitätsstrasse 1, 40225, Düsseldorf, Germany.
Astrid HoeppnerCenter for Structural Studies (CSS), Heinrich Heine University Düsseldorf, Universitätsstrasse 1, 40225, Düsseldorf, Germany.ORCID http://orcid.org/0000-0002-7076-5936
Nicholas HolzscheckDepartment of Microbiology and Biotechnology, University of Hamburg, Ohnhorststrasse 18, 22609, Hamburg, Germany.
Christoph Heinrich StrunkInstitute of Molecular Enzyme Technology (IMET), Heinrich Heine University Düsseldorf, 52426, Jülich, Germany.
Harald HuberInstitute for Microbiology and Archaeal Center, Regensburg University, 93035, Regensburg, Germany.
Karl-Erich JaegerInstitute of Molecular Enzyme Technology (IMET), Heinrich Heine University Düsseldorf, 52426, Jülich, Germany.
Holger GohlkeJohn von Neumann Institute for Computing (NIC), Jülich Supercomputing Centre (JSC) & Institute of Biological Information Processing (IBI-7: Structural Biochemistry), Forschungszentrum Jülich GmbH, 52425, Jülich, Germany.
Filip KovacicInstitute of Molecular Enzyme Technology (IMET), Heinrich Heine University Düsseldorf, 52426, Jülich, Germany.ORCID http://orcid.org/0000-0002-0313-427X
Sander H J SmitsCenter for Structural Studies (CSS), Heinrich Heine University Düsseldorf, Universitätsstrasse 1, 40225, Düsseldorf, Germany.ORCID http://orcid.org/0000-0003-0780-9251
Wolfgang R StreitDepartment of Microbiology and Biotechnology, University of Hamburg, Ohnhorststrasse 18, 22609, Hamburg, Germany.ORCID http://orcid.org/0000-0001-7617-7396
Jennifer ChowDepartment of Microbiology and Biotechnology, University of Hamburg, Ohnhorststrasse 18, 22609, Hamburg, Germany. jennifer.chow@uni-hamburg.de.ORCID http://orcid.org/0000-0002-7499-5325
Heinrich Heine University Düsseldorf · DEUniversität Hamburg · DEForschungszentrum Jülich · DE

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The metallo-β-lactamase fold is an ancient protein structure present in numerous enzyme families responsible for diverse biological processes. The crystal structure of the hyperthermostable crenarchaeal enzyme Igni18 from Ignicoccus hospitalis was solved at 2.3 Å and could resemble a possible first archetype of a multifunctional metallo-β-lactamase. Ancestral enzymes at the evolutionary origin are believed to be promiscuous all-rounders. Consistently, Igni18´s activity can be cofactor-dependently directed from β-lactamase to lactonase, lipase, phosphodiesterase, phosphotriesterase or phospholipase. Its core-domain is highly conserved within metallo-β-lactamases from Bacteria, Archaea and Eukarya and gives insights into evolution and function of enzymes from this superfamily. Structural alignments with diverse metallo-β-lactamase-fold-containing enzymes allowed the identification of Protein Variable Regions accounting for modulation of activity, specificity and oligomerization patterns. Docking of different substrates within the active sites revealed the basis for the crucial cofactor dependency of this enzyme superfamily.

Indexed as

Evolution, Molecularbeta-LactamasesCrystallographyDesulfurococcaceaeEnzyme StabilityHydrogen-Ion ConcentrationMolecular Docking SimulationMolecular Dynamics SimulationProtein ConformationProtein FoldingStructure-Activity RelationshipSubstrate SpecificityTemperaturebeta-Lactamases

Identifiers

PMID33514861
PMCPMC7846560
OpenAlexW3123748678

What OpenQuestion holds

Textmetadata
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.