SMTL ID : 4i12.2 (1 other biounit)

Design and synthesis of thiophene dihydroisoquinolins as novel BACE-1 inhibitors

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

homo-dimer

Ligands

2 x 1BC: 2-{(1S)-1-{[(1Z)-6-chloro-3,3-dimethyl-3,4-dihydroisoquinolin-1(2H)-ylidene]amino}-2-[2-propyl-4-(1H-pyrazol-4-yl)thiophen-3-yl]ethyl}pyrimidin-4(5H)-one(Non-covalent)

1BC.1: 20 residues within 4Å: Chain A: S.16, Q.18, G.19, L.36, D.38, Y.77, Q.79, G.80, K.81, K.113, F.114, I.116, W.121, S.235, G.236, T.237, T.238, N.239, R.241, A.341 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.36, A:Y.77, A:Y.77, A:F.114, A:A.341 Hydrogen bonds: A:T.238, A:N.239 1BC.7: 20 residues within 4Å: Chain B: S.16, Q.18, G.19, L.36, D.38, Y.77, Q.79, G.80, K.81, K.113, F.114, I.116, W.121, S.235, G.236, T.237, T.238, N.239, R.241, A.341 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.36, B:Y.77, B:Y.77, B:F.114, B:A.341 Hydrogen bonds: B:T.238, B:T.238, B:N.239

6 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.55 Chain B: E.23, P.94, H.95 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.95, A:H.55, H2O.5 ZN.3: 2 residues within 4Å: Chain A: H.402, H.404 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.402, A:H.404 ZN.4: 2 residues within 4Å: Chain A: D.137, H.403 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.137, A:D.137, A:H.403 ZN.8: 4 residues within 4Å: Chain A: E.23, P.94, H.95 Chain B: H.55 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.95, B:H.55, H2O.11 ZN.9: 2 residues within 4Å: Chain B: H.402, H.404 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:H.402, B:H.404 ZN.10: 2 residues within 4Å: Chain B: D.137, H.403 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.137, B:D.137, B:H.403

4 x NA: SODIUM ION(Non-functional Binders)

NA.5: 1 residues within 4Å: Chain A: R.102 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.102 NA.6: 3 residues within 4Å: Chain A: H.51, S.111, F.115 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.111 NA.11: 1 residues within 4Å: Chain B: R.102 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.102 NA.12: 3 residues within 4Å: Chain B: H.51, S.111, F.115 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, Y.Z. et al., Design and synthesis of thiophene dihydroisoquinolines as novel BACE1 inhibitors. Bioorg.Med.Chem.Lett. (2013)

Release Date

2013-03-06

Peptides

Beta-secretase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Beta-secretase 1

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