SMTL ID : 6w0w.1

Structure of KHK in complex with compound 3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x RZA: 6-[(3~{R},4~{S})-3,4-bis(oxidanyl)pyrrolidin-1-yl]-2-[(2~{S},3~{R})-2-methyl-3-oxidanyl-azetidin-1-yl]-4-(trifluoromethyl)pyridine-3-carbonitrile(Non-covalent)

RZA.1: 18 residues within 4Å: Chain A: A.239, W.240, A.241, E.242, G.244, A.245, A.259, F.260, P.261, P.262, V.265, T.268, F.275, C.297, A.300, G.301, C.304 Chain B: D.42 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:A.239, A:F.275, A:A.300 Hydrogen bonds: A:W.240, A:G.244, A:G.244, A:F.260, A:T.268, A:T.268 RZA.3: 18 residues within 4Å: Chain B: A.239, W.240, A.241, E.242, G.244, A.245, A.259, F.260, P.261, P.262, V.265, T.268, F.275, C.297, A.300, G.301, C.304 Ligands: SO4.6 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:A.239, B:F.275 Hydrogen bonds: B:W.240, B:G.244, B:G.244, B:F.260 Halogen bonds: B:F.260

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

SO4.2: 6 residues within 4Å: Chain A: R.123, T.268, G.270, A.271, G.272, D.273 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.270, A:A.271, A:G.272, A:D.273 Salt bridges: A:R.123 SO4.4: 6 residues within 4Å: Chain B: R.93, R.94, Q.307, G.308, F.309, D.310 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.307, B:F.309, B:D.310 Water bridges: B:R.94 Salt bridges: B:R.93, B:R.94 SO4.5: 5 residues within 4Å: Chain A: R.46 Chain B: L.127, 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 SO4.6: 6 residues within 4Å: Chain B: T.268, G.270, A.271, G.272, D.273 Ligands: RZA.3 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.270, B:A.271, B:G.272, B:D.273, B:D.273

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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