SMTL ID : 5a0a.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.78 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: 10 residues within 4Å: Chain A: W.12, Q.121, C.122, L.123, N.144, V.178, C.179, N.180, G.181 Ligands: NAG.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.12, A:L.123, 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:R.52, A:A.71

1 x JJS: 5-[(6R)-5-ethanoyl-4-methyl-2-oxidanylidene-3-[3-(trifluoromethyl)phenyl]-1,6-dihydropyrimidin-6-yl]pyridine-2-carbonitrile(Non-covalent)

JJS.3: 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 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:H.41, A:F.170, A:F.189, A:V.190, A:V.190 Hydrogen bonds: A:V.190 Water bridges: A:S.188, A:V.190

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

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

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.5: 5 residues within 4Å: Chain A: R.114, L.116, N.180, L.182, H.184 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.180 Salt bridges: A:R.114, A:H.184

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

von Nussbaum, F. et al., Freezing the Bioactive Conformation to Boost Potency: The Identification of BAY 85-8501, a Selective and Potent Inhibitor of Human Neutrophil Elastase for Pulmonary Diseases. ChemMedChem (2015)

Release Date

2015-08-19

Peptides

NEUTROPHIL ELASTASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

NEUTROPHIL ELASTASE

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