Crystallographic fragment screening supports tool compound discovery and reveals conformational flexibility in human deoxyhypusine synthase
Wilk, Piotr ; Wątor-Wilk, Elżbieta ; Muszak, Damian ; Kochanowski, Paweł ; Krojer, Tobias LU
and Grudnik, Przemysław
(2026)
In Communications Chemistry
9(1).
- Abstract
Deoxyhypusine synthase (DHS) catalyzes the rate-limiting step of hypusination, a unique post-translational modification of eukaryotic translation factor 5 A (eIF5A). While DHS activity plays a critical role in both normal cellular processes and disease development, the lack of specific molecular tools has hindered detailed studies of this enzyme and the hypusination pathway in general. Existing inhibitors, such as polyamine analogs, suffer from limited specificity and versatility. In this study, we utilized crystallographic fragment screening (CFS) to identify potential DHS inhibitors and explore novel applications of this approach. With an unprecedented hit rate of 39%, we identified fragment clusters binding at key sites, including... (More)
Deoxyhypusine synthase (DHS) catalyzes the rate-limiting step of hypusination, a unique post-translational modification of eukaryotic translation factor 5 A (eIF5A). While DHS activity plays a critical role in both normal cellular processes and disease development, the lack of specific molecular tools has hindered detailed studies of this enzyme and the hypusination pathway in general. Existing inhibitors, such as polyamine analogs, suffer from limited specificity and versatility. In this study, we utilized crystallographic fragment screening (CFS) to identify potential DHS inhibitors and explore novel applications of this approach. With an unprecedented hit rate of 39%, we identified fragment clusters binding at key sites, including the active site entrance, the tetramer interface, the regulatory ball-and-chain motif, and potentially allosteric regions on the enzyme’s surface. Notably, we discovered a covalent modifier that targets the catalytic lysine residue in an oxidoreductase reaction-specific manner, as well as fragments that induce significant structural rearrangements of crucial regulatory elements. Our findings establish a framework for extending CFS beyond traditional inhibitor discovery, demonstrating its utility in probing protein dynamics, identifying novel binding pockets, and investigating regulatory mechanisms. These results offer new insights into DHS function, hypusination dynamics, and the broader methodological advancements that CFS contributes to structural biology and protein regulation research.
(Less)
- author
- Wilk, Piotr
; Wątor-Wilk, Elżbieta
; Muszak, Damian
; Kochanowski, Paweł
; Krojer, Tobias
LU
and Grudnik, Przemysław
- organization
- publishing date
- 2026-12
- type
- Contribution to journal
- publication status
- published
- subject
- in
- Communications Chemistry
- volume
- 9
- issue
- 1
- article number
- 66
- publisher
- Springer Nature
- external identifiers
-
- scopus:105029170009
- pmid:41548022
- ISSN
- 2399-3669
- DOI
- 10.1038/s42004-026-01897-9
- language
- English
- LU publication?
- yes
- id
- 0e90c739-304f-42e7-b1ca-7a41f2874e12
- date added to LUP
- 2026-02-16 15:15:03
- date last changed
- 2026-06-09 06:11:03
@article{0e90c739-304f-42e7-b1ca-7a41f2874e12,
abstract = {{<p>Deoxyhypusine synthase (DHS) catalyzes the rate-limiting step of hypusination, a unique post-translational modification of eukaryotic translation factor 5 A (eIF5A). While DHS activity plays a critical role in both normal cellular processes and disease development, the lack of specific molecular tools has hindered detailed studies of this enzyme and the hypusination pathway in general. Existing inhibitors, such as polyamine analogs, suffer from limited specificity and versatility. In this study, we utilized crystallographic fragment screening (CFS) to identify potential DHS inhibitors and explore novel applications of this approach. With an unprecedented hit rate of 39%, we identified fragment clusters binding at key sites, including the active site entrance, the tetramer interface, the regulatory ball-and-chain motif, and potentially allosteric regions on the enzyme’s surface. Notably, we discovered a covalent modifier that targets the catalytic lysine residue in an oxidoreductase reaction-specific manner, as well as fragments that induce significant structural rearrangements of crucial regulatory elements. Our findings establish a framework for extending CFS beyond traditional inhibitor discovery, demonstrating its utility in probing protein dynamics, identifying novel binding pockets, and investigating regulatory mechanisms. These results offer new insights into DHS function, hypusination dynamics, and the broader methodological advancements that CFS contributes to structural biology and protein regulation research.</p>}},
author = {{Wilk, Piotr and Wątor-Wilk, Elżbieta and Muszak, Damian and Kochanowski, Paweł and Krojer, Tobias and Grudnik, Przemysław}},
issn = {{2399-3669}},
language = {{eng}},
number = {{1}},
publisher = {{Springer Nature}},
series = {{Communications Chemistry}},
title = {{Crystallographic fragment screening supports tool compound discovery and reveals conformational flexibility in human deoxyhypusine synthase}},
url = {{http://dx.doi.org/10.1038/s42004-026-01897-9}},
doi = {{10.1038/s42004-026-01897-9}},
volume = {{9}},
year = {{2026}},
}