SMTL ID : 3w0t.2 (1 other biounit)

Human Glyoxalase I with an N-hydroxypyridone derivative inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: Q.37, E.103 Chain B: H.130, E.176 Ligands: HPU.5 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:E.103, A:E.103, B:H.130, B:E.176 ZN.3: 5 residues within 4Å: Chain A: H.130, E.176 Chain B: Q.37, E.103 Ligands: HPU.2 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Metal complexes: A:H.130, A:E.176, B:E.103

2 x HPU: N-[3-(1-hydroxy-6-oxo-4-phenyl-1,6-dihydropyridin-2-yl)phenyl]methanesulfonamide(Non-covalent)

HPU.2: 18 residues within 4Å: Chain A: H.130, M.161, L.164, E.176, M.183, L.186, M.187 Chain B: Q.37, M.39, C.64, F.66, F.71, L.73, F.75, I.92, E.103, T.105 Ligands: ZN.3 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.66, B:L.73, B:F.75, B:I.92, A:L.164, A:L.186 Water bridges: B:R.41 HPU.5: 19 residues within 4Å: Chain A: Q.37, M.39, C.64, F.66, M.69, L.73, F.75, L.96, E.103, T.105 Chain B: H.130, M.161, L.164, F.166, W.174, E.176, M.183, M.187 Ligands: ZN.1 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.73, A:F.75, A:L.96 Hydrogen bonds: A:Q.37 Water bridges: A:R.41 pi-Stacking: A:F.66, B:F.166

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.4: 3 residues within 4Å: Chain B: C.23, S.24, D.25 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.25, B:D.25 Water bridges: B:S.24, B:D.25 Salt bridges: B:D.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Koyano, H. et al., N-Hydroxypyridone-based glyoxalase I inhibitors mimicking binding interactions of the substrate. To be Published

Release Date

2013-11-06

Peptides

Lactoylglutathione lyase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Lactoylglutathione lyase

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