SMTL ID : 3uqu.1

Crystal structure of BACE1 with its inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x ZPX: N-[(1R)-1-(4-fluorophenyl)ethyl]-N'-[(2S,3S)-3-hydroxy-1-phenyl-4-(1H-pyrazol-1-yl)butan-2-yl]-5-[methyl(methylsulfonyl)amino]benzene-1,3-dicarboxamide(Non-covalent)

ZPX.1: 24 residues within 4Å: Chain A: G.51, Q.52, G.53, Y.54, L.70, D.72, G.74, Y.111, T.112, Q.113, F.148, I.150, W.155, I.158, D.268, S.269, G.270, T.271, T.272, N.273, R.275, R.347, S.365, A.375 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:L.70, A:L.70, A:Y.111, A:Y.111, A:Q.113, A:F.148, A:F.148, A:I.150, A:W.155, A:W.155, A:A.375 Hydrogen bonds: A:T.112, A:T.112, A:Q.113, A:Q.113, A:D.268, A:G.270, A:G.270, A:T.272, A:N.273, A:N.273, A:S.365 Water bridges: A:T.271, A:T.272, A:R.275 pi-Stacking: A:Y.111

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

SO4.2: 6 residues within 4Å: Chain A: T.112, R.275, Q.366, S.367, S.368, T.369 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.368, A:T.369, A:T.369 Salt bridges: A:R.275 SO4.3: 1 residues within 4Å: Chain A: K.258 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.258 SO4.4: 2 residues within 4Å: Chain A: R.389, R.391 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.389, A:R.389 Salt bridges: A:R.389, A:R.391

2 x URE: UREA(Non-functional Binders)

URE.5: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.286 URE.7: 2 residues within 4Å: Chain A: D.102, R.104 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.102, A:R.104

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 1 residues within 4Å: Chain A: G.226 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, Y.C. et al., Flexibility of the Flap in the Active Site of BACE1 as Revealed by Crystal Structures and MD simulations. to be published

Release Date

2012-11-21

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-secretase 1

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