SMTL ID : 5v0n.2 (2 other biounits)

BACE1 in complex with inhibitor 5g

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: R.283, Q.374, S.375, S.376 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.374, A:S.376, A:T.377 Water bridges: A:R.283 Salt bridges: A:R.283 SO4.2: 6 residues within 4Å: Chain A: R.144, A.145, N.146, E.182, S.187, Q.191 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.146, A:S.187, A:S.187 Water bridges: A:N.146, A:N.146, A:N.146, A:N.146, A:Q.191, A:Q.191 SO4.3: 3 residues within 4Å: Chain A: R.98, Y.99, Q.101 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.99 SO4.4: 2 residues within 4Å: Chain A: N.341, L.425 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.341

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: R.253, E.255, Y.334, V.423, T.424 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.253, A:E.255 Water bridges: A:Y.334

1 x 8W4: N-{(1S,2S)-1-[(2S)-4-benzyl-3-oxopiperazin-2-yl]-1-hydroxy-3-phenylpropan-2-yl}-7-ethyl-1,3,3-trimethyl-2,2-dioxo-1,2,3,4-tetrahydro-2lambda~6~-[1,2,5]thiadiazepino[3,4,5-hi]indole-9-carboxamide(Non-covalent)

8W4.6: 24 residues within 4Å: Chain A: G.59, Q.60, G.61, L.78, D.80, G.82, S.83, P.118, Y.119, T.120, Q.121, F.156, W.163, I.166, I.174, Y.246, I.274, D.276, G.278, T.279, T.280, N.281, R.283, S.373 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.78, A:Y.119, A:Q.121, A:F.156, A:F.156, A:W.163, A:W.163, A:I.166 Hydrogen bonds: A:G.82, A:G.82, A:T.120, A:T.120, A:Q.121, A:G.278, A:T.279, A:T.280, A:N.281, A:S.373

1 x URE: UREA(Non-functional Binders)

URE.7: 2 residues within 4Å: Chain A: E.267, Y.270 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghosh, A.K. et al., Design, synthesis, and X-ray structural studies of BACE-1 inhibitors containing substituted 2-oxopiperazines as P1'-P2' ligands. Bioorg. Med. Chem. Lett. (2017)

Release Date

2017-05-03

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Beta-secretase 1

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