SMTL ID : 6jsn.1

Crystal Structure of BACE1 in complex with N-{3-[(5R)-3-amino-5-methyl-9,9-dioxo-2,9lambda6-dithia-4-azaspiro[5.5]undec-3-en-5-yl]-4-fluorophenyl}-5-(fluoromethoxy)pyrazine-2-carboxamide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

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

IOD.1: 4 residues within 4Å: Chain A: H.68, T.126, E.127, S.128 Ligand excluded by PLIP IOD.2: 1 residues within 4Å: Chain A: R.372 Ligand excluded by PLIP IOD.3: 1 residues within 4Å: Chain A: K.130 Ligand excluded by PLIP IOD.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.5: 3 residues within 4Å: Chain A: R.119, E.157, Q.166 Ligand excluded by PLIP IOD.6: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 3 residues within 4Å: Chain A: R.73, Y.74, Q.76 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.72, A:Y.74, A:Y.74

1 x C7O: N-[3-[(5R)-3-azanyl-5-methyl-9,9-bis(oxidanylidene)-2,9$l^{6}-dithia-4-azaspiro[5.5]undec-3-en-5-yl]-4-fluoranyl-phenyl]-5-(fluoranylmethoxy)pyrazine-2-carboxamide(Non-covalent)

C7O.8: 19 residues within 4Å: Chain A: G.34, Q.35, G.36, Y.37, L.53, D.55, G.57, Y.94, F.131, I.133, W.138, I.141, D.251, S.252, G.253, T.254, T.255, R.330, A.358 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.57, A:D.251, A:G.253

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fujimoto, K. et al., Structure-Based Design of Selective beta-Site Amyloid Precursor Protein Cleaving Enzyme 1 (BACE1) Inhibitors: Targeting the Flap to Gain Selectivity over BACE2. J.Med.Chem. (2019)

Release Date

2019-08-28

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-secretase 1

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