5L9Y image
Deposition Date 2016-06-13
Release Date 2017-05-31
Last Version Date 2024-10-09
Entry Detail
PDB ID:
5L9Y
Keywords:
Title:
Crystal structure of human heparanase, in complex with glucuronic acid configured aziridine probe JJB355
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.88 Å
R-Value Free:
0.22
R-Value Work:
0.17
R-Value Observed:
0.18
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Heparanase
Gene (Uniprot):HPSE
Chain IDs:A
Chain Length:389
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Heparanase
Gene (Uniprot):HPSE
Chain IDs:B
Chain Length:77
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Activity-based probes for functional interrogation of retaining beta-glucuronidases.
Nat. Chem. Biol. 13 867 873 (2017)
PMID: 28581485 DOI: 10.1038/nchembio.2395

Abstact

Humans express at least two distinct β-glucuronidase enzymes that are involved in disease: exo-acting β-glucuronidase (GUSB), whose deficiency gives rise to mucopolysaccharidosis type VII, and endo-acting heparanase (HPSE), whose overexpression is implicated in inflammation and cancers. The medical importance of these enzymes necessitates reliable methods to assay their activities in tissues. Herein, we present a set of β-glucuronidase-specific activity-based probes (ABPs) that allow rapid and quantitative visualization of GUSB and HPSE in biological samples, providing a powerful tool for dissecting their activities in normal and disease states. Unexpectedly, we find that the supposedly inactive HPSE proenzyme proHPSE is also labeled by our ABPs, leading to surprising insights regarding structural relationships between proHPSE, mature HPSE, and their bacterial homologs. Our results demonstrate the application of β-glucuronidase ABPs in tracking pathologically relevant enzymes and provide a case study of how ABP-driven approaches can lead to discovery of unanticipated structural and biochemical functionality.

Legend

Protein

Chemical

Disease

Primary Citation of related structures