SMTL ID : 4re9.2 (1 other biounit)

Crystal structure of human insulin degrading enzyme (IDE) in complex with compound 71290

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.91 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.79, H.83, E.160 Ligands: 3M9.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.79, A:H.83, A:E.160, A:E.160

1 x 3M9: 4-fluoro-N-({1-[(2R)-4-(hydroxyamino)-1-(naphthalen-2-yl)-4-oxobutan-2-yl]-1H-1,2,3-triazol-5-yl}methyl)benzamide(Non-covalent)

3M9.2: 15 residues within 4Å: Chain A: H.79, E.82, H.83, F.86, S.99, S.109, N.110, A.111, E.160, S.787, F.791, R.795, Y.802, V.804 Ligands: ZN.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.802 Hydrogen bonds: A:A.111, A:R.795, A:Y.802 pi-Stacking: A:H.83, A:F.791 Halogen bonds: A:S.787

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

EPE.3: 13 residues within 4Å: Chain A: Q.771, E.780, R.810, A.811, N.812, G.813, R.864, G.880, E.881, S.884, Q.886, R.891, E.895 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.771, A:R.810, A:N.812, A:G.813 Water bridges: A:R.864 Salt bridges: A:E.881

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 7 residues within 4Å: Chain A: V.331, G.332, G.333, Q.334, K.335, I.345 Ligands: PEG.5 No protein-ligand interaction detected (PLIP) PEG.5: 10 residues within 4Å: Chain A: H.303, G.306, H.307, G.310, E.312, L.330, V.331, G.332, Y.580 Ligands: PEG.4 No protein-ligand interaction detected (PLIP) PEG.6: 6 residues within 4Å: Chain A: H.650, M.654, I.803, F.805, R.818, I.820 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.650, A:R.818, A:R.818 PEG.7: 3 residues within 4Å: Chain A: A.169, W.170, F.173 No protein-ligand interaction detected (PLIP)

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.8: 11 residues within 4Å: Chain A: Y.555, S.561, Y.565, N.593, T.594, I.595, Y.637, S.640, L.641, K.668, L.671 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.593, A:S.640, A:S.640, A:K.668

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

EDO.9: 3 residues within 4Å: Chain A: Q.592, Y.599, W.879 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.592

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deprez-Poulain, R. et al., Catalytic site inhibition of insulin-degrading enzyme by a small molecule induces glucose intolerance in mice. Nat Commun (2015)

Release Date

2015-09-30

Peptides

Insulin-degrading enzyme: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Insulin-degrading enzyme

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