SMTL ID : 3udj.1

Crystal Structure of BACE with Compound 5

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x 092: METHYL (3S,5'R)-2-OXO-1,2-DIHYDROSPIRO[INDOLE-3,3'-PYRROLIDINE]-5'-CARBOXYLATE(Non-covalent)

092.1: 8 residues within 4Å: Chain A: L.34, D.36, G.38, Y.75, Q.77, F.112, D.232, G.234 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.34, A:Y.75, A:F.112 Hydrogen bonds: A:Q.77, A:D.232

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 7 residues within 4Å: Chain A: T.86, R.100, A.101, N.102, E.138, S.143, Q.147 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.102, A:S.143, A:Q.147 Water bridges: A:N.102, A:E.138 EDO.3: 4 residues within 4Å: Chain A: D.220, K.222, E.223, Y.226 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.220

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 9 residues within 4Å: Chain A: G.15, Q.16, G.17, Y.18, S.233, G.234, T.235, T.236, A.339 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.15, A:G.17, A:T.236, A:T.236 Water bridges: A:Q.16, A:T.236

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 2 residues within 4Å: Chain A: H.400, H.402 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.400, A:H.402

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Efremov, I.V. et al., Discovery and optimization of a novel spiropyrrolidine inhibitor of {beta}-secretase (BACE1) through fragment-based drug design. J.Med.Chem. (2012)

Release Date

2012-04-18

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-secretase 1

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