SMTL ID : 5wbq.1

Structure of human Ketohexokinase complexed with hits from fragment screening

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x A3J: 2-ethyl-7-[(3S)-3-hydroxy-3-methylpyrrolidin-1-yl]-5-(trifluoromethyl)-1H-pyrrolo[3,2-b]pyridine-6-carbonitrile(Non-covalent)

A3J.1: 19 residues within 4Å: Chain A: N.122, K.208, A.239, W.240, 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 Ligands: SO4.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.239, A:T.268, A:F.275 Hydrogen bonds: A:A.241 Water bridges: A:G.301 A3J.3: 15 residues within 4Å: Chain B: A.239, W.240, 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 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:A.239, B:T.268, B:F.275 Hydrogen bonds: B:A.241

2 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 Ligands: A3J.1 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:N.60, A:N.60 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 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.307, B:F.309, B:D.310 Salt bridges: B:R.93, B:R.94

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 4 residues within 4Å: Chain A: R.46 Chain B: L.26, H.128, R.156 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huard, K. et al., Discovery of Fragment-Derived Small Molecules for in Vivo Inhibition of Ketohexokinase (KHK). J. Med. Chem. (2017)

Release Date

2017-09-13

Peptides

Ketohexokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ketohexokinase

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