Evidence map›Paper›PMID 40447595›Full record

ArticleNature communications2025

Identification of covalent inhibitors of Staphylococcus aureus serine hydrolases important for virulence and biofilm formation.

Tulsi Upadhyay, Emily C Woods, Stephen Dela Ahator, Kjersti Julin, Franco F Faucher, Md Jalal Uddin, Marijn J Hollander, Nichole J Pedowitz, Daniel Abegg, Isabella Hammond and 9 more

Abstract read
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

  1. Article
  2. Article
  3. Unique structural and ligand-binding properties of theProceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  4. Article
  5. Imaging ofbioRxiv : the preprint server for biology · 2026
    Article
  6. Article
  7. Unique structural and ligand binding properties of thebioRxiv : the preprint server for biology · 2025
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

19 authors.

Tulsi UpadhyayDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.ORCID http://orcid.org/0000-0001-5547-8683
Emily C WoodsDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.ORCID http://orcid.org/0000-0003-3140-8458
Stephen Dela AhatorCentre for New Antibacterial Strategies (CANS) and Research Group for Host-Microbe Interactions, Department of Medical Biology (IMB), UiT─The Arctic University of Norway, Tromsø, Norway.ORCID http://orcid.org/0000-0002-5028-2515
Kjersti JulinCentre for New Antibacterial Strategies (CANS) and Research Group for Host-Microbe Interactions, Department of Medical Biology (IMB), UiT─The Arctic University of Norway, Tromsø, Norway.ORCID http://orcid.org/0000-0002-8750-7693
Franco F FaucherDepartment of Chemistry, Stanford University, Stanford, CA, USA.
Md Jalal UddinCentre for New Antibacterial Strategies (CANS) and Research Group for Host-Microbe Interactions, Department of Medical Biology (IMB), UiT─The Arctic University of Norway, Tromsø, Norway.ORCID http://orcid.org/0000-0002-3349-7741
Marijn J HollanderDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.ORCID http://orcid.org/0009-0000-2398-9171
Nichole J PedowitzDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.
Daniel AbeggDepartment of Chemistry, University of Illinois Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0001-6829-3119
Isabella HammondDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.
Ifeanyichukwu E EkeDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.ORCID http://orcid.org/0000-0001-9790-7589
Sijie WangDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.
Shiyu ChenDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.
John M BennettDepartment of Chemistry, Stanford University, Stanford, CA, USA.
Jeyun JoDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.ORCID http://orcid.org/0000-0002-6701-0452
Christian S LentzCentre for New Antibacterial Strategies (CANS) and Research Group for Host-Microbe Interactions, Department of Medical Biology (IMB), UiT─The Arctic University of Norway, Tromsø, Norway.ORCID http://orcid.org/0000-0001-7284-2264
Alexander AdibekianDepartment of Chemistry, University of Illinois Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0001-6453-0244
Matthias FellnerBiochemistry Department, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand.ORCID http://orcid.org/0000-0003-3192-6984
Matthew BogyoDepartment of Pathology, Stanford School of Medicine, Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA. mbogyo@stanford.edu.ORCID http://orcid.org/0000-0003-3753-4412

Funding

Graduate Training Program in BiotechnologyT32GM141819 · NIGMS · STANFORD UNIVERSITY · PI Eric Andrew Appel, Fan Yang · 2021 to 2026
$1.9M
Probing conformational changes by protein surface azidationR01GM145886 · NIGMS · UNIVERSITY OF ILLINOIS AT CHICAGO · PI ADIBEKIAN, ALEXANDER · 2022 to 2025
$1.6M
Staphylococcus serine hydrolases as targets for therapeutic and imaging contrast agentsR01EB026332 · NIBIB · STANFORD UNIVERSITY · PI BOGYO, MATTHEW · 2018 to 2021
$1.4M
Mapping Dynamic Changes in Protein Interactome using Proximity Labeling with High Temporal ResolutionR61CA297953 · NCI · UNIVERSITY OF ILLINOIS AT CHICAGO · PI Alexander Adibekian, ANDREI V KARGINOV · 2025 to 2026
$610k
National Science Foundation (NSF) DGE-1656518NCI NIH HHS R61 CA297953NIBIB NIH HHS R01 EB026332NIGMS NIH HHS R01 GM145886NIGMS NIH HHS T32 GM141819U.S. Department of Health & Human Services | National Institutes of Health (NIH) T32GM141819
6 · The paper itself

Abstract

Staphylococcus aureus is a leading cause of bacteria-associated mortality worldwide. New tools are needed to both image and treat this pathogen. We previously identified a group of S. aureus serine hydrolases (Fphs), which regulate aspects of virulence and lipid metabolism. However, due to high structural and functional similarities, it remains challenging to distinguish the specific roles of members of this family. Here, we apply a high-throughput screening approach using a library of covalent electrophiles to identify inhibitors for FphB, FphE, and FphH. We identify selective covalent inhibitors for each target without the need for extensive medicinal chemistry optimization. Structural and biochemical analysis identify novel binding modes for several of the inhibitors. Functional studies using the inhibitors suggest that all three hydrolases likely play distinct functional roles in biofilm formation and virulence. This approach has the potential to be applied to target hydrolases in other diverse pathogens or higher eukaryotes.

Indexed as

Anti-Bacterial AgentsBacterial ProteinsBiofilmsEnzyme InhibitorsHydrolasesSerine Proteinase InhibitorsStaphylococcus aureusHigh-Throughput Screening AssaysHumansStaphylococcal InfectionsVirulenceAnti-Bacterial AgentsBacterial ProteinsEnzyme InhibitorsHydrolasesSerine Proteinase Inhibitors

Identifiers

PMID40447595
PMCPMC12125221

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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 Socratic graph.