8GOD

Co-crystal structure of Human Protein-arginine deiminase type-4 (PAD4) with small molecule inhibitor JBI-589

Summary for 8GOD

• Entry DOI: 10.2210/pdb8god/pdb
• Descriptor: Protein-arginine deiminase type-4, [(3~{R})-3-azanylpiperidin-1-yl]-[2-[1-[(4-fluorophenyl)methyl]indol-2-yl]-3-methyl-imidazo[1,2-a]pyridin-7-yl]methanone (3 entities in total)
• Functional Keywords: small molecule inhibitor, hydrolase
• Biological source: Homo sapiens (human)
• Total number of polymer chains: 1
• Total formula weight: 77801.07

Authors

Swaminathan, S.,Birudukota, S.,Vaithilingam, K.,Kandan, S.,Asaithambi, K.,Kathiresan, N.,Gosu, R.,Rajagopal, S.,Sadhu, N. (deposition date: 2022-08-24, release date: 2023-03-29, Last modification date: 2023-11-29)

Primary citation

Gajendran, C.,Fukui, S.,Sadhu, N.M.,Zainuddin, M.,Rajagopal, S.,Gosu, R.,Gutch, S.,Fukui, S.,Sheehy, C.E.,Chu, L.,Vishwakarma, S.,Jeyaraj, D.A.,Hallur, G.,Wagner, D.D.,Sivanandhan, D.
Alleviation of arthritis through prevention of neutrophil extracellular traps by an orally available inhibitor of protein arginine deiminase 4.
Sci Rep, 13:3189-3189, 2023

PubMed Abstract: Protein arginine deiminases (PAD) 4 is an enzyme that catalyzes citrullination of protein and its role in autoimmune diseases has been established through clinical genetics and gene knock out studies in mice. Further, studies with PAD4 - deficient mice have shown that PAD4 deficiency does not lead to increased infection or immune suppression, which makes PAD4 an attractive therapeutic target for auto-immune and inflammatory diseases. PAD4 has critical enzymatic role of promoting chromatin decondensation and neutrophil extracellular traps (NETs) formation that is associated with a number of immune-mediated pathological conditions. Here, we present a non-covalent PAD4 inhibitor JBI-589 with high PAD4 isoform selectivity and delineated its binding mode at 2.88 Å resolution by X-ray crystallography. We confirmed its effectiveness in inhibiting NET formation in vitro. Additionally, by using two mouse arthritis models for human rheumatoid arthritis (RA), the well-known disease associated with PAD4 clinically, we established its efficacy in vivo. These results suggest that JBI-589 would be beneficial for both PAD4 and NET-associated pathological conditions.

PubMed: 36823444
DOI: 10.1038/s41598-023-30246-2

Experimental method

X-RAY DIFFRACTION (2.88 Å)