SMTL ID : 6w0n.1

Structure of KHK in complex with compound 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

homo-dimer

Ligands

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

RYS.1: 16 residues within 4Å: Chain A: N.122, A.239, A.241, E.242, A.259, P.261, P.262, V.265, T.268, A.271, G.272, F.275, A.300, G.301, C.304 Chain B: D.42 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.239, A:A.271, A:F.275 Hydrogen bonds: A:N.122, A:A.241 Water bridges: A:A.239, A:W.240 RYS.4: 14 residues within 4Å: Chain B: A.239, A.241, E.242, A.259, P.261, P.262, V.265, T.268, A.271, G.272, F.275, A.300, G.301, C.304 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:A.239, B:A.271, B:F.275, B:A.300 Hydrogen bonds: B:A.241 Water bridges: B:A.239, B:W.240, B:T.268

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

SO4.2: 8 residues within 4Å: Chain A: R.123, T.268, L.269, G.270, A.271, G.272, D.273 Chain B: E.44 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.270, A:A.271, A:G.272, A:D.273 Water bridges: A:E.188, A:E.188 Salt bridges: A:R.123 SO4.5: 5 residues within 4Å: Chain B: R.93, R.94, G.308, F.309, D.310 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:F.309, B:D.310 Water bridges: B:Q.53, B:D.90, B:R.93, B:R.93, B:R.94, B:R.94 Salt bridges: B:R.93, B:R.94 SO4.6: 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

2 x CIT: CITRIC ACID(Non-functional Binders)

CIT.3: 13 residues within 4Å: Chain A: L.26, V.28, D.30, G.55, G.56, N.57, S.112, I.125, L.127, E.154, E.188, K.189 Chain B: E.44 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.125 Hydrogen bonds: A:G.56, A:N.57, A:S.112 Water bridges: A:D.30 Salt bridges: A:K.189, A:K.189 CIT.7: 6 residues within 4Å: Chain B: F.281, S.282, Q.285, R.287, E.291, F.295 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.281, B:F.295 Hydrogen bonds: B:S.282, B:Q.285, B:R.287 Water bridges: B:F.295, B:F.295 Salt bridges: B:R.287, B:R.287

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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