SMTL ID : 7d2x.1

Crystal Structure of BACE1 in complex with N-{3-[(4R)-2-amino-4-(prop-1-yn-1-yl)-5,6-dihydro-4H-1,3-oxazin-4-yl]-4-fluorophenyl}-5-cyanopyridine-2-carboxamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

2 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 3 residues within 4Å: Chain A: H.68, E.127, S.128 Ligand excluded by PLIP IOD.2: 2 residues within 4Å: Chain A: H.68, K.130 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: T.42, V.43, G.44, S.45, P.47, L.107, V.108, S.109, T.117 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.42, A:V.43, A:S.45, A:S.109, A:S.109 GOL.4: 4 residues within 4Å: Chain A: V.116, T.167, H.168, V.169 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.168

1 x GTU: N-[3-[(4R)-2-azanyl-4-prop-1-ynyl-5,6-dihydro-1,3-oxazin-4-yl]-4-fluoranyl-phenyl]-5-cyano-pyridine-2-carboxamide(Non-covalent)

GTU.5: 18 residues within 4Å: Chain A: G.34, Q.35, G.36, L.53, D.55, G.57, S.58, W.99, F.131, I.133, W.138, I.141, D.251, S.252, G.253, T.254, T.255, A.358 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.251, A:G.253, A:T.255 Water bridges: A:G.34

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fujimoto, K. et al., Structure-Based Approaches to Improving Selectivity through Utilizing Explicit Water Molecules: Discovery of Selective beta-Secretase (BACE1) Inhibitors over BACE2. J.Med.Chem. (2021)

Release Date

2021-03-31

Peptides

Beta-secretase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-secretase 1

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