SMTL ID : 1qh3.1

HUMAN GLYOXALASE II WITH CACODYLATE AND ACETATE IONS PRESENT IN THE ACTIVE SITE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.54, H.56, H.110, D.134 Ligands: ZN.2, CAC.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.54, A:H.56, A:H.110, A:D.134, H2O.1 ZN.2: 6 residues within 4Å: Chain A: D.58, H.59, D.134, H.173 Ligands: ZN.1, CAC.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.58, A:H.59, A:D.134, A:H.173, H2O.1 ZN.8: 6 residues within 4Å: Chain B: H.54, H.56, H.110, D.134 Ligands: ZN.9, CAC.10 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.54, B:H.56, B:H.110, B:D.134, H2O.181 ZN.9: 7 residues within 4Å: Chain B: N.12, D.58, H.59, D.134, H.173 Ligands: ZN.8, CAC.10 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.58, B:H.59, B:D.134, B:H.173, H2O.181

4 x CAC: CACODYLATE ION(Non-covalent)

CAC.3: 9 residues within 4Å: Chain A: H.56, D.58, H.110, D.134, Y.145, H.173, Y.175 Ligands: ZN.1, ZN.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.175, A:Y.175 CAC.5: 3 residues within 4Å: Chain A: C.153, K.154, E.158 No protein-ligand interaction detected (PLIP) CAC.10: 9 residues within 4Å: Chain B: H.56, D.58, H.110, D.134, Y.145, H.173, Y.175 Ligands: ZN.8, ZN.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.175 Water bridges: B:Y.175 CAC.12: 3 residues within 4Å: Chain B: C.153, K.154, E.158 No protein-ligand interaction detected (PLIP)

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 6 residues within 4Å: Chain A: F.137, C.141, K.143, Y.175, R.249, K.252 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.137, A:Y.175 Water bridges: A:K.143, A:K.143, A:R.249, A:K.252 Salt bridges: A:R.249, A:K.252 ACT.11: 6 residues within 4Å: Chain B: F.137, C.141, K.143, Y.175, R.249, K.252 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.137, B:Y.175 Water bridges: B:K.143, B:R.249, B:K.252 Salt bridges: B:R.249, B:K.252

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.6: 4 residues within 4Å: Chain A: H.185, H.235, E.251 Ligands: CL.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.185, A:H.235, A:E.251, A:E.251 MN.13: 3 residues within 4Å: Chain B: H.185, E.251 Ligands: CL.7 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.185, B:E.251, H2O.235, H2O.262, H2O.367

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

CL.7: 3 residues within 4Å: Chain A: E.251 Ligands: MN.6, MN.13 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cameron, A.D. et al., Crystal structure of human glyoxalase II and its complex with a glutathione thiolester substrate analogue. Structure Fold.Des. (1999)

Release Date

1999-09-24

Peptides

PROTEIN (HYDROXYACYLGLUTATHIONE HYDROLASE): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PROTEIN (HYDROXYACYLGLUTATHIONE HYDROLASE)

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