SMTL ID : 6sma.3 (2 other biounits)

Crystal structure of Human Neutrophil Elastase (HNE) in complex with the 3-Oxo-beta-Sultam inhibitor LMC249

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

monomer

Ligands

2 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 9 residues within 4Å: Chain A: R.49, A.50, V.51, R.52, V.69, F.70, A.71, N.95, G.96 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.71, A:V.69 Hydrogen bonds: A:R.52, A:R.52, A:R.52 NAG-NAG-FUC.2: 10 residues within 4Å: Chain A: R.5, W.12, Q.121, C.122, L.123, N.144, V.178, C.179, N.180, G.181 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.12, A:V.178 Hydrogen bonds: A:Q.121, A:N.180, A:N.180, A:G.181

2 x BR: BROMIDE ION(Non-covalent)

BR.3: 6 residues within 4Å: Chain A: R.6, L.130, A.137, S.138, V.139, Q.141 Ligand excluded by PLIP BR.4: 4 residues within 4Å: Chain A: R.6, P.9, H.58, V.139 Ligand excluded by PLIP

1 x LKK: 3-[[1-[(4-bromophenyl)methyl]-1,2,3-triazol-4-yl]methylcarbamoyl]pentane-3-sulfonic acid(Covalent)

LKK.5: 12 residues within 4Å: Chain A: H.41, L.85, V.168, C.169, F.170, G.171, D.172, S.173, A.187, S.188, F.189, V.190 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.170, A:F.170, A:V.190 Hydrogen bonds: A:S.188 pi-Stacking: A:H.41

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 1 residues within 4Å: Chain A: R.132 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.132, A:R.132 EDO.7: 7 residues within 4Å: Chain A: V.2, L.129, G.131, R.132, C.169, F.170, C.194 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.131 Water bridges: A:C.194

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carvalho, L.A.R. et al., 3-Oxo-beta-sultam as a Sulfonylating Chemotype for Inhibition of Serine Hydrolases and Activity-Based Protein Profiling. Acs Chem.Biol. (2020)

Release Date

2020-04-08

Peptides

Neutrophil elastase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Neutrophil elastase

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