PanRes: A database of latent and acquired antimicrobial resistance allowing 3D-based protein homology search

Abstract

Antimicrobial resistance databases are central to genomic surveillance, but resistance determinants remain distributed across resources with different scopes, structures, and annotations. We developed PanRes, a curated resistance database of 11,717 genes integrating acquired and latent determinants of antibiotic, biocide, and metal resistance within a unified ontology. We predicted representative protein structures and clustered them by structural similarity, grouping proteins into 505 high-confidence structurally conserved clusters coherent despite sequence divergence. Their structure-guided alignments were used to build Hidden Markov Models (HMMs) for remote homology search. In seven wastewater metagenomes from five European cities, PanRes 3D-based HMMs expanded detection beyond what was possible with BLAST, with 35.3% of retained hits identified only by the HMMs and generally showing greater divergence from known proteins. For beta-lactamases, several proteins retained beta-lactamase-like folds and catalytic geometry despite weak sequence similarity. PanRes is available through an interactive web platform (https://panres.rambio.dk/), a structure-informed resource for exploring the whole resistome.

Acquired resistance to vorinostat in cutaneous T cell lymphoma involves augmented ERK phosphorylation
Atish Kizhakeyil, Zhi Sheng Poh, Brandon Han Siang Wong +12
Communications Biology5 Nov 2026Peer-reviewedCC BY 4.0General biologyCrossrefNature
Parameter-Efficient Adaptation of Protein Language Models for Dual-Target Antimicrobial Peptide Discovery Under Strict Homology Constraints
R. Jat, S. R. Ejaz
bioRxiv31 Oct 2026PreprintCC BYFull textBioinformatics & computational biologybioRxiv
Spatial dynamics of systemic acquired resistance-associated metabolites in the wheat cultivar fielder infected by Blumeria graminis f. sp. tritici
Yuanjie Weng, Yuki Sato, Yumiko Takebayashi +3
Frontiers in Plant Science2 Nov 2026Peer-reviewedCC BY 4.0Plant biologyFrontiersCrossref
Antimicrobial Resistance (AMR) Surveillance: Ten Years On.
Dame Sally C Davies
Clinical infectious diseases : an official publication of the Infectious Diseases Society of America1 Oct 2026Peer-reviewedCC BYFull textMicrobiologyEurope PMC
Editorial: Evolution of antimicrobial resistance in intracellular bacterial pathogens: a genomic and historical perspective
Kumaragurubaran Karthik, Maryam Dadar, Subbaiyan Anbazhagan +1
Frontiers in Microbiology25 Sep 2026Peer-reviewedCC BY 4.0Full textMicrobiologyHAL

Cite

BibTeX RIS

BibTeX

@misc{vojtkova2026panres,
  title = {{PanRes: A database of latent and acquired antimicrobial resistance allowing 3D-based protein homology search}},
  author = {M. Vojtkova and M. Baltusis and H.-M. Martiny and A. Baral and N. Pyrounakis and A. Beleon and R. Freitag and A. Pico-Tomas and R. S. Kaas and T. N. Petersen and P. Munk},
  howpublished = {bioRxiv},
  year = {2026},
  month = jun,
  doi = {10.64898/2026.06.22.733705},
  url = {https://www.biorxiv.org/content/10.64898/2026.06.22.733705v2},
  note = {CC BY-NC},
}

RIS

TY  - UNPB
TI  - PanRes: A database of latent and acquired antimicrobial resistance allowing 3D-based protein homology search
AU  - M. Vojtkova
AU  - M. Baltusis
AU  - H.-M. Martiny
AU  - A. Baral
AU  - N. Pyrounakis
AU  - A. Beleon
AU  - R. Freitag
AU  - A. Pico-Tomas
AU  - R. S. Kaas
AU  - T. N. Petersen
AU  - P. Munk
PY  - 2026
DA  - 2026/06/22
PB  - bioRxiv
DO  - 10.64898/2026.06.22.733705
UR  - https://www.biorxiv.org/content/10.64898/2026.06.22.733705v2
AB  - Antimicrobial resistance databases are central to genomic surveillance, but resistance determinants remain distributed across resources with different scopes, structures, and annotations. We developed PanRes, a curated resistance database of 11,717 genes integrating acquired and latent determinants of antibiotic, biocide, and metal resistance within a unified ontology. We predicted representative protein structures and clustered them by structural similarity, grouping proteins into 505 high-confidence structurally conserved clusters coherent despite sequence divergence. Their structure-guided alignments were used to build Hidden Markov Models (HMMs) for remote homology search. In seven wastewater metagenomes from five European cities, PanRes 3D-based HMMs expanded detection beyond what was possible with BLAST, with 35.3% of retained hits identified only by the HMMs and generally showing greater divergence from known proteins. For beta-lactamases, several proteins retained beta-lactamase-like folds and catalytic geometry despite weak sequence similarity. PanRes is available through an interactive web platform (https://panres.rambio.dk/), a structure-informed resource for exploring the whole resistome.
ER  -

Abstract

Related

Cite