SMTL ID : 6xvp.1

Crystal structure of Neprilysin in complex with Sampatrilat.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.533, H.537, E.596, H.661 Ligands: D0Z.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.533, A:H.537, A:E.596, A:E.596

1 x D0Z: Sampatrilat(Non-covalent)

D0Z.2: 18 residues within 4Å: Chain A: R.52, F.56, D.57, R.60, N.492, A.493, F.494, Y.495, V.530, H.533, E.534, H.537, E.596, W.643, V.660, H.661, R.667 Ligands: ZN.1 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:F.56, A:F.56, A:F.56, A:F.56, A:F.56, A:V.530, A:W.643, A:W.643 Hydrogen bonds: A:N.492, A:N.492, A:R.667, A:R.667 Water bridges: A:R.52 Salt bridges: A:R.52, A:R.60, A:H.533, A:H.537, A:H.661, A:H.661 pi-Cation interactions: A:R.52

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 3 residues within 4Å: Chain A: N.94, A.97, D.454 No protein-ligand interaction detected (PLIP) NAG.4: 2 residues within 4Å: Chain A: N.234, K.303 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.234, A:K.303 Water bridges: A:N.234 NAG.5: 7 residues within 4Å: Chain A: T.132, K.135, K.268, N.274, N.277, E.278, S.281 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.277 Hydrogen bonds: A:N.274, A:E.278 NAG.6: 4 residues within 4Å: Chain A: Y.573, G.576, N.577, H.587 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.577

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

EDO.7: 5 residues within 4Å: Chain A: R.340, R.344, Y.348, T.350, E.353 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.340, A:R.340, A:E.353 EDO.8: 7 residues within 4Å: Chain A: P.47, T.49, S.50, Y.53, D.61, T.354, R.358 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.49, A:T.49 Water bridges: A:R.358 EDO.9: 9 residues within 4Å: Chain A: C.92, I.98, S.330, S.331, K.337, T.356, R.359, C.360, Y.456 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:C.92, A:K.337, A:R.359, A:R.359, A:Y.456

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sharma, U. et al., Molecular Basis for Omapatrilat and Sampatrilat Binding to Neprilysin-Implications for Dual Inhibitor Design with Angiotensin-Converting Enzyme. J.Med.Chem. (2020)

Release Date

2020-05-13

Peptides

Neprilysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Neprilysin

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