SMTL ID : 6w0z.1

Structure of KHK in complex with compound 8 (2-[(1~{S},5~{R})-3-[2-[(2~{S})-2-methylazetidin-1-yl]-6-(trifluoromethyl)pyrimidin-4-yl]-3-azabicyclo[3.1.0]hexan-6-yl]ethanoic acid)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x S6D: 2-[(1~{S},5~{R})-3-[2-[(2~{S})-2-methylazetidin-1-yl]-6-(trifluoromethyl)pyrimidin-4-yl]-3-azabicyclo[3.1.0]hexan-6-yl]ethanoic acid(Non-covalent)

S6D.1: 19 residues within 4Å: Chain A: R.123, A.239, A.241, E.242, G.244, A.259, F.260, P.261, P.262, T.268, L.269, G.270, A.271, G.272, F.275, C.297, A.300, G.301, C.304 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.275, A:F.275 Hydrogen bonds: A:G.270, A:A.271, A:G.272 Salt bridges: A:R.123 Halogen bonds: A:F.260 S6D.3: 18 residues within 4Å: Chain B: A.239, A.241, E.242, G.244, A.259, F.260, P.261, P.262, T.268, L.269, G.270, A.271, G.272, F.275, C.297, A.300, G.301, C.304 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.275, B:F.275 Hydrogen bonds: B:G.270, B:A.271, B:G.272 Halogen bonds: B:F.260

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

SO4.2: 7 residues within 4Å: Chain A: Q.53, R.54, T.63, D.90, R.93, R.94, F.309 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.54, A:R.54 Water bridges: A:F.309 Salt bridges: A:R.54, A:R.93, A:R.94 SO4.4: 5 residues within 4Å: Chain A: R.46 Chain B: L.26, H.128, R.156, K.189 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Salt bridges: B:H.128, B:R.156, B:K.189, A:R.46 SO4.5: 6 residues within 4Å: Chain B: Q.53, R.93, R.94, Q.307, G.308, F.309 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:F.309 Water bridges: B:R.93 Salt bridges: B:R.93, B:R.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Futatsugi, K. et al., Discovery of PF-06835919: A Potent Inhibitor of Ketohexokinase (KHK) for the Treatment of Metabolic Disorders Driven by the Overconsumption of Fructose. J.Med.Chem. (2020)

Release Date

2020-09-23

Peptides

Ketohexokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ketohexokinase

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