SMTL ID : 4dv9.1

Crystal structure of BACE1 with its inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

monomer

Ligands

1 x 2OP- VAL- GNC- PSA- LEU- ALA- ZAE- PLJ: METHYL (2S)-1-[(2R,5S,8S,12S,13S,16S,19S,22S)-16-(3-AMINO-3-OXOPROPYL)-2,13-DIBENZYL-12,22-DIHYDROXY-3,5,17-TRIMETHYL-8-(2-METHYLPROPYL)-4,7,10,15,18,21-HEXAOXO-19-(PROPAN-2-YL)-3,6,9,14,17,20-HEXAAZATRICOSAN-1-OYL]PYRROLIDINE-2-CARBOXYLATE (NON-PREFERRED NAME)(Non-covalent)

2OP-VAL-GNC-PSA-LEU-ALA-ZAE-PLJ.1: 23 residues within 4Å: Chain A: G.51, G.53, L.70, D.72, G.74, S.75, V.109, P.110, Y.111, T.112, Q.113, F.148, I.150, W.155, I.166, W.237, Y.238, D.268, G.270, T.271, T.272, R.275, R.347 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:L.70, A:V.109, A:P.110, A:Y.111, A:Y.111, A:T.112, A:Q.113, A:F.148, A:I.150, A:W.155, A:I.166, A:I.166, A:W.237, A:Y.238 Hydrogen bonds: A:D.72, A:G.74, A:P.110, A:T.112, A:T.112, A:Q.113, A:Q.113, A:G.270, A:T.272, A:T.272, A:T.272, A:T.272 Water bridges: A:N.273, A:R.275, A:R.275 pi-Stacking: A:Y.111

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

SO4.2: 3 residues within 4Å: Chain A: R.90, Y.91, Q.93 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.91, A:Q.93 Water bridges: A:Q.93 SO4.3: 3 residues within 4Å: Chain A: Y.91, Q.93, Q.95 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.93, A:Q.95, A:Q.95 SO4.4: 6 residues within 4Å: Chain A: R.136, A.137, N.138, E.174, S.179, Q.183 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.138, A:S.179, A:Q.183 Water bridges: A:N.138, A:S.179 SO4.5: 3 residues within 4Å: Chain A: S.62, P.63, S.98 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., Cyanobacterial Peptides as a Prototype for the Design of Potent beta-Secretase Inhibitors and the Development of Selective Chemical Probes for Other Aspartic Proteases. J.Med.Chem. (2012)

Release Date

2013-01-16

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-secretase 1

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