SMTL ID : 6uvp.2 (1 other biounit)

BACE-1 in complex with compound #3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.56 Å

Oligo State

monomer

Ligands

3 x QJJ: N-{(1S,2S)-2-[(4aS,7aR)-2-amino-4a,5-dihydro-4H-furo[3,4-d][1,3]thiazin-7a(7H)-yl]cyclopropyl}-5-fluoropyridine-2-carboxamide(Non-covalent)

QJJ.1: 18 residues within 4Å: Chain A: S.59, G.60, Q.61, G.62, L.79, D.81, G.83, Y.120, F.157, I.159, W.164, I.167, D.277, S.278, G.279, T.280, T.281, A.384 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.120, A:F.157, A:I.159 Hydrogen bonds: A:D.81, A:G.279 QJJ.2: 8 residues within 4Å: Chain A: T.131, R.145, N.147, S.181, E.183, S.188, K.191, Q.192 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.147, A:N.147, A:K.191, A:K.191 Water bridges: A:R.110, A:T.131 QJJ.3: 3 residues within 4Å: Chain A: N.211, S.213, E.214 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.211, A:E.214 Water bridges: A:S.213

1 x QJM: N-{(1R,2R)-2-[(4aS,7aR)-2-amino-4a,5-dihydro-4H-furo[3,4-d][1,3]thiazin-7a(7H)-yl]cyclopropyl}-5-fluoropyridine-2-carboxamide(Non-covalent)

QJM.4: 6 residues within 4Å: Chain A: H.411, D.412, E.413, F.414, R.415, T.416 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.416 Hydrogen bonds: A:D.412 Water bridges: A:T.416

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: F.208, G.322, D.367 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.322, A:D.367 GOL.6: 3 residues within 4Å: Chain A: R.99, Y.100, Q.102 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.100, A:Y.100 Water bridges: A:Q.102, A:Q.102

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 4 residues within 4Å: Chain A: H.94, F.96, D.155, K.156 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.94, A:D.155, A:K.156 Water bridges: A:F.157 SO4.8: 3 residues within 4Å: Chain A: R.356, V.358, K.370 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.356, A:K.370

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Winneroski, L.L. et al., Preparation and biological evaluation of BACE1 inhibitors: Leveraging trans-cyclopropyl moieties as ligand efficient conformational constraints. Bioorg.Med.Chem. (2020)

Release Date

2019-12-11

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Beta-secretase 1

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