SMTL ID : 5f01.1

CRYSTAL STRUCTURE OF BACE-1 IN COMPLEX WITH (1SR,2SR)-2-((R)-2-amino-5,5-difluoro-4-methyl-5,6-dihydro-4H-1,3-oxazin-4-yl)-N-(3-chloroquinolin-8-yl)cyclopropanecarboxamide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.52 Å

Oligo State

monomer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 2 residues within 4Å: Chain A: H.186, Y.189 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.189 Water bridges: A:H.186 NA.2: 2 residues within 4Å: Chain A: V.146, T.149 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.149

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 6 residues within 4Å: Chain A: R.101, A.102, N.103, E.139, S.144, Q.148 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.139 DMS.5: 4 residues within 4Å: Chain A: K.223, E.224, Y.227, Y.389 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:E.224 pi-Cation interactions: A:Y.227

1 x 5T7: (1~{R},2~{R})-2-[(4~{R})-2-azanyl-5,5-bis(fluoranyl)-4-methyl-6~{H}-1,3-oxazin-4-yl]-~{N}-(3-chloranylquinolin-8-yl)cyclopropane-1-carboxamide(Non-covalent)

5T7.4: 16 residues within 4Å: Chain A: G.16, Q.17, G.18, L.35, D.37, G.39, Y.76, I.115, I.123, D.233, S.234, G.235, T.236, T.237, A.340 Ligands: ACT.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.35, A:Y.76, A:I.115, A:I.123 Hydrogen bonds: A:D.233, A:G.235, A:T.236

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 4 residues within 4Å: Chain A: H.50, S.110, D.111, K.112 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.50, A:K.112 Water bridges: A:F.113

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 9 residues within 4Å: Chain A: K.14, S.15, G.16, Q.17, G.18, Y.19, V.175, R.312 Ligands: 5T7.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.19, A:V.175 Hydrogen bonds: A:G.16, A:Q.17, A:G.18 Water bridges: A:R.312, A:R.312 Salt bridges: A:R.312

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuhn, B. et al., A Real-World Perspective on Molecular Design. J.Med.Chem. (2016)

Release Date

2016-02-24

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-secretase 1

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