SMTL ID : 6q3x.2 (1 other biounit)

Structure of human galactokinase in complex with galactose and 2'-(benzo[d]oxazol-2-ylamino)-7',8'-dihydro-1'H-spiro[cyclohexane-1,4'-quinazolin]-5'(6'H)-one

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x GAL: beta-D-galactopyranose(Non-covalent)

GAL.1: 12 residues within 4Å: Chain A: R.38, E.44, H.45, D.47, Y.48, C.183, G.184, M.186, D.187, Y.237, G.346, G.347 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:H.45, A:D.47, A:G.184, A:G.184, A:D.187, A:G.347 Water bridges: A:R.38, A:T.46, A:D.187, A:D.187

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 7 residues within 4Å: Chain A: V.10, A.32, V.33, S.34, K.389, V.390, L.391 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.389, A:L.391 Hydrogen bonds: A:S.34, A:S.34, A:K.389 MPD.3: 4 residues within 4Å: Chain A: Q.169, Q.172, Q.173, H.176 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Q.169, A:Q.172 Water bridges: A:Q.173, A:Q.173, A:Q.173

1 x HFK: 2-(1,3-benzoxazol-2-ylamino)spiro[1,6,7,8-tetrahydroquinazoline-4,1'-cyclohexane]-5-one(Non-covalent)

HFK.4: 15 residues within 4Å: Chain A: T.62, T.78, S.80, G.82, D.84, R.106, W.107, Y.110, V.130, L.136, G.137, S.142, S.143, L.146, R.229 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:R.106, A:Y.110, A:V.130, A:L.136, A:L.136, A:L.146 Hydrogen bonds: A:Y.110, A:G.137, A:S.142, A:S.142 Water bridges: A:S.142, A:S.143

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mackinnon, S.R. et al., Fragment Screening Reveals Starting Points for Rational Design of Galactokinase 1 Inhibitors to Treat Classic Galactosemia. Acs Chem.Biol. (2021)

Release Date

2020-07-15

Peptides

Galactokinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Galactokinase

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