SMTL ID : 5t1w.1

Aminomethyl-Derived Beta Secretase (BACE1) Inhibitors: Engaging Gly230 without an Anilide Functionality

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.96 Å

Oligo State

monomer

Ligands

1 x 74B: (4aR,6R,8aS)-8a-(2,4-difluoro-5-{[(2,2,2-trifluoroethyl)amino]methyl}phenyl)-6-(fluoromethyl)-4,4a,5,6,8,8a-hexahydropyrano[3,4-d][1,3]thiazin-2-amine(Non-covalent)

74B.1: 19 residues within 4Å: Chain A: G.27, Q.28, G.29, L.46, D.48, G.50, S.51, V.85, Y.87, F.124, I.126, W.131, I.134, R.144, D.244, G.246, T.247, T.248 Ligands: GOL.7 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.46, A:Y.87, A:F.124, A:I.134 Hydrogen bonds: A:G.50, A:S.51, A:D.244, A:G.246

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

IOD.2: 3 residues within 4Å: Chain A: T.119, 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.255 Ligand excluded by PLIP

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

NA.5: 1 residues within 4Å: Chain A: S.344 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.344, A:S.344 NA.6: 2 residues within 4Å: Chain A: H.197, Y.200 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.197

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 10 residues within 4Å: Chain A: K.25, S.26, G.27, Q.28, G.29, Y.30, T.248, A.351, E.355 Ligands: 74B.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.27, A:Q.28, A:G.29, A:T.248 GOL.8: 6 residues within 4Å: Chain A: L.165, I.195, Y.206, D.362, R.365, R.367 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.365, A:R.365, A:R.367 GOL.9: 3 residues within 4Å: Chain A: Y.84, R.144, P.145 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.84

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

DMS.10: 6 residues within 4Å: Chain A: T.98, R.112, N.114, E.150, K.158, Q.159 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.158 Salt bridges: A:E.150

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.11: 2 residues within 4Å: Chain A: G.13, H.197 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain A: Y.238 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Butler, C.R. et al., Aminomethyl-Derived Beta Secretase (BACE1) Inhibitors: Engaging Gly230 without an Anilide Functionality. J. Med. Chem. (2017)

Release Date

2017-01-11

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-secretase 1

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