SMTL ID : 4wy6.1

Crystal structure of human BACE-1 bound to Compound 36

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x 3VP: (4aR,6R,8aS)-8a-(2,4-difluorophenyl)-6-(fluoromethyl)-4,4a,5,6,8,8a-hexahydropyrano[3,4-d][1,3]thiazin-2-amine(Non-covalent)

3VP.1: 14 residues within 4Å: Chain A: L.46, D.48, G.50, S.51, V.85, Y.87, F.124, W.131, I.134, R.144, D.244, G.246, T.247 Ligands: DMS.7 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.87, A:I.134 Hydrogen bonds: A:S.51, A:D.244 Water bridges: A:D.244

5 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 3 residues within 4Å: Chain A: H.61, E.120, S.121 Ligand excluded by PLIP IOD.3: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.4: 1 residues within 4Å: Chain A: K.123 Ligand excluded by PLIP IOD.5: 1 residues within 4Å: Chain A: R.365 Ligand excluded by PLIP IOD.6: 1 residues within 4Å: Chain A: R.112 Ligand excluded by PLIP

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.7: 11 residues within 4Å: Chain A: G.27, Q.28, G.29, L.46, I.126, S.245, G.246, T.247, T.248 Ligands: 3VP.1, DMS.8 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.248 DMS.8: 13 residues within 4Å: Chain A: K.25, S.26, G.27, Q.28, G.29, Y.30, V.186, T.247, T.248, R.323, A.351, E.355 Ligands: DMS.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.27, A:Q.28, A:G.29 DMS.9: 9 residues within 4Å: Chain A: T.35, V.36, G.37, S.38, P.40, L.100, V.101, S.102, T.110 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.35, A:S.102 DMS.10: 5 residues within 4Å: Chain A: N.108, V.109, T.160, H.161, V.162 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Butler, C.R. et al., Discovery of a Series of Efficient, Centrally Efficacious BACE1 Inhibitors through Structure-Based Drug Design. J.Med.Chem. (2015)

Release Date

2015-03-04

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-secretase 1

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