SMTL ID : 5qct.3 (2 other biounits)

Crystal structure of BACE complex with BMC001

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

1 x E4Y: (2R,4S)-N-butyl-4-[(4S,6R)-16-ethoxy-12-ethyl-6-methyl-2,13-dioxo-3,12-diazabicyclo[12.3.1]octadeca-1(18),14,16-trien-4-yl]-4-hydroxy-2-methylbutanamide(Non-covalent)

E4Y.1: 22 residues within 4Å: Chain A: G.27, Q.28, G.29, L.46, D.48, G.50, S.51, V.85, P.86, Y.87, T.88, Q.89, F.124, W.131, I.134, I.142, Y.214, D.244, G.246, T.247, T.248, R.251 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:L.46, A:L.46, A:V.85, A:Y.87, A:Y.87, A:Q.89, A:F.124, A:W.131, A:I.134 Hydrogen bonds: A:D.48, A:G.50, A:T.88, A:Q.89, A:G.246, A:T.247, A:T.248, A:T.248, A:R.251 Water bridges: A:Y.214, A:Y.214, A:N.249

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 3 residues within 4Å: Chain A: E.306, R.365, R.367 3 PLIP interactions: 3 interactions with chain A Water bridges: A:E.306 Salt bridges: A:R.365, A:R.367

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Parks, C.D. et al., D3R grand challenge 4: blind prediction of protein-ligand poses, affinity rankings, and relative binding free energies. J.Comput.Aided Mol.Des. (2020)

Release Date

2020-06-03

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Beta-secretase 1

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