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

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

Coordinates

PDB Format Compare

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: 14 residues within 4Å: Chain A: H.79, E.82, H.83, F.86, S.99, S.109, N.110, A.111, E.160, F.791, R.795, Y.802 Ligands: ZN.1, PEG.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.111, A:R.795, A:Y.802 pi-Stacking: A:F.791 pi-Cation interactions: A:R.795

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

EPE.3: 12 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 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.771, A:N.812, A:G.813 Salt bridges: A:E.881

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

PEG.4: 7 residues within 4Å: Chain A: H.650, M.654, I.803, F.805, R.818, I.820 Ligands: 3M9.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.818 PEG.5: 8 residues within 4Å: Chain A: Y.555, S.561, Y.565, N.593, T.594, I.595, Y.637, L.671 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.593, A:Y.637 PEG.6: 10 residues within 4Å: Chain A: L.172, F.173, L.175, E.176, T.179, I.275, Y.285, K.335, R.448, A.450 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.448 PEG.7: 3 residues within 4Å: Chain A: A.169, W.170, F.173 No protein-ligand interaction detected (PLIP) PEG.8: 5 residues within 4Å: Chain A: V.331, G.332, G.333, Q.334, I.345 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.332 PEG.9: 8 residues within 4Å: Chain A: N.283, Y.285, T.329, L.330, V.331, N.347, V.348, D.349 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.283, A:T.329, A:T.329

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

1PE.10: 15 residues within 4Å: Chain A: Q.294, Y.297, N.300, H.303, Q.334, E.336, M.342, N.389, Y.414, Y.415, A.423, E.424, Y.425, L.426, L.427 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.300, A:N.389

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
A

Insulin-degrading enzyme

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