SMTL ID : 8god.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.88 Å

Oligo State

homo-dimer

Ligands

2 x K3X: [(3~{R})-3-azanylpiperidin-1-yl]-[2-[1-[(4-fluorophenyl)methyl]indol-2-yl]-3-methyl-imidazo[1,2-a]pyridin-7-yl]methanone(Non-covalent)

K3X.1: 17 residues within 4Å: Chain A: D.378, G.436, V.497, H.499, D.501, E.502, F.543, E.608, A.609, F.610, F.611, P.612, N.613, N.616, F.662, Y.664, V.671 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.497, A:F.543, A:E.608, A:P.612, A:N.613, A:F.662, A:V.671 Hydrogen bonds: A:H.499, A:D.501, A:N.613, A:N.613, A:N.616 K3X.2: 17 residues within 4Å: Chain B: D.378, G.436, V.497, H.499, D.501, E.502, F.543, E.608, A.609, F.610, F.611, P.612, N.613, N.616, F.662, Y.664, V.671 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:V.497, B:F.543, B:E.608, B:P.612, B:N.613, B:F.662, B:V.671 Hydrogen bonds: B:D.501, B:N.613, B:N.613, B:N.616

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gajendran, C. et al., Alleviation of arthritis through prevention of neutrophil extracellular traps by an orally available inhibitor of protein arginine deiminase 4. Sci Rep (2023)

Release Date

2023-03-29

Peptides

Protein-arginine deiminase type-4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Protein-arginine deiminase type-4