SMTL ID : 5a8x.1

Crystal Structure of human neutrophil elastase in complex with a dihydropyrimidone inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.23 Å

Oligo State

monomer

Ligands

2 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.1: 9 residues within 4Å: Chain A: W.12, Q.121, L.123, N.144, V.178, C.179, N.180, G.181 Ligands: NAG.3 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.12, A:V.178 Hydrogen bonds: A:Q.121, A:N.180, A:G.181, A:Q.121, A:N.144 NAG-FUC.2: 7 residues within 4Å: Chain A: R.49, A.50, V.51, R.52, V.69, A.71, N.95 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:R.52 Hydrogen bonds: A:A.71

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-functional Binders)

NAG.3: 2 residues within 4Å: Ligands: NAG-FUC.1, NAG-FUC.1 No protein-ligand interaction detected (PLIP)

1 x IUY: ethyl (5R)-5-(4-cyanophenyl)-7-methyl-8-[3-(trifluoromethyl)phenyl]-1,5-dihydroimidazo[1,2-a]pyrimidin-4-ium-6-carboxylate(Non-covalent)

IUY.4: 14 residues within 4Å: Chain A: H.41, Y.80, L.85, L.86, D.88, V.168, C.169, F.170, D.172, S.173, A.187, S.188, F.189, V.190 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:H.41, A:L.85, A:F.170, A:F.170, A:F.189, A:V.190, A:V.190 Hydrogen bonds: A:V.190 Salt bridges: A:H.41 pi-Stacking: A:H.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

von Nussbaum, F. et al., Potent and Selective Human Neutrophil Elastase Inhibitors with Novel Equatorial Ring Topology: in vivo Efficacy of the Polar Pyrimidopyridazine BAY-8040 in a Pulmonary Arterial Hypertension Rat Model. ChemMedChem (2016)

Release Date

2016-08-03

Peptides

Neutrophil elastase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Neutrophil elastase

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