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A Novel Extracellular Metallopeptidase Domain Shared by Animal Host-Associated Mutualistic and Pathogenic Microbes
Open accessAbstract
The mucosal microbiota is recognised as an important factor for our health, with many disease states linked to imbalances in the normal community structure. Hence, there is considerable interest in identifying the molecular basis of human-microbe interactions. In this work we investigated the capacity of microbes to thrive on mucosal surfaces, either as mutualists, commensals or pathogens, using comparative genomics to identify co-occurring molecular traits. We identified a novel domain we named M60-like/PF13402 (new Pfam entry PF13402), which was detected mainly among proteins from animal host mucosa-associated prokaryotic and eukaryotic microbes ranging from mutualists to pathogens. Lateral gene transfers between distantly related microbes explained their shared M60-like/PF13402 domain. The novel domain is characterised by a zinc-metallopeptidase-like motif and is distantly related to known viral enhancin zinc-metallopeptidases. Signal peptides and/or cell surface anchoring features were detected in most microbial M60-like/PF13402 domain-containing proteins, indicating that these proteins target an extracellular substrate. A significant subset of these putative peptidases was further characterised by the presence of associated domains belonging to carbohydrate-binding module family 5/12, 32 and 51 and other glycan-binding domains, suggesting that these novel proteases are targeted to complex glycoproteins such as mucins. An in vitro mucinase assay demonstrated degradation of mammalian mucins by a recombinant form of an M60-like/PF13402-containing protein from the gut mutualist Bacteroides thetaiotaomicron. This study reveals that M60-like domains are peptidases targeting host glycoproteins. These peptidases likely play an important role in successful colonisation of both vertebrate mucosal surfaces and the invertebrate digestive tract by both mutualistic and pathogenic microbes. Moreover, 141 entries across various peptidase families described in the MEROPS database were also identified with carbohydrate-binding modules defining a new functional context for these glycan-binding domains and providing opportunities to engineer proteases targeting specific glycoproteins for both biomedical and industrial applications.
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“the M60-like protease family cleaves the mucin glycoprotein backbone in a manner that is dependent on the presence of specific glycan sidechain structures.125,126”
From The emerging roles of bacterial proteases in intestinal diseases (2023) · cites this paper as [125]
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Metadata
- Authors
- Nakjang, S., Ndeh, D. A., Wipat, A., Bolam, D. N., & Hirt, R. P.
- Affiliations
- Newcastle University (GB)
- Corresponding author
- Nakjang, Sirintra
- Ndeh, Didier A.
- Wipat, Anil
- Bolam, David N.
- Hirt, Robert P.
- Venue
- PLoS ONE
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- Public Library of Science (PLoS)
- Published
- 2012-01-27
- Volume
- 7
- Issue
- 1
- Pages
- e30287
- ISSN
- 1932-6203 (ISSN-L)
- PMC
- PMC3267712
- OpenAlex
- W2015392436
- Cited by
- 116
- References
- 94
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- Language
- en
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- Commonwealth Scholarship Commission
- Department for International Development
- Fakultet Medicinskih Nauka, Univerziteta U Kragujevcu
- Biotechnology and Biological Sciences Research Council (BB/F014163/1)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Life Sciences › Immunology and Microbiology › Virology › Bacteriophages and microbial interactions
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- extracellular peptidases, mucin degradation, mucin, host-microbe interactions, mucosal microbiota, horizontal gene transfer, carbohydrate-binding module, Bacteroides thetaiotaomicron, host colonization, signal peptide
- MeSH terms
- Adaptation, Biological, Amino Acid Sequence, Animals, Base Sequence, Digestive System, Humans, Invertebrates, Molecular Sequence Data, Symbiosis, Sequence Homology, Amino Acid, Protein Structure, Tertiary, Metalloproteases, Host-Pathogen Interactions
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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