SMTL ID : 6rwd.1

Crystal structure of SjGST in complex with GSH and ellagic acid at 1.53 Angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

homo-dimer

Ligands

2 x GSH: GLUTATHIONE(Non-covalent)

GSH.1: 12 residues within 4Å: Chain A: Y.7, W.8, L.13, W.41, K.45, N.54, L.55, P.56, Q.67, S.68 Chain B: D.101 Ligands: REF.5 19 PLIP interactions: 17 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.13 Hydrogen bonds: A:N.54, A:N.54, A:L.55, A:L.55, A:Q.67, A:Q.67, A:S.68, A:Y.104, A:Y.104, B:D.101 Water bridges: A:K.45, A:K.45, A:K.45, A:K.45, A:N.54, A:M.69, B:D.101 Salt bridges: A:K.45 GSH.4: 12 residues within 4Å: Chain A: D.101 Chain B: Y.7, W.8, L.13, W.41, K.45, N.54, L.55, P.56, Q.67, S.68 Ligands: REF.5 16 PLIP interactions: 15 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.13 Hydrogen bonds: B:W.41, B:N.54, B:L.55, B:L.55, B:L.55, B:Q.67, B:Q.67, B:S.68, A:D.101 Water bridges: B:K.45, B:K.45, B:N.54, B:M.69, B:Y.104 Salt bridges: B:K.45

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain A: D.214 Ligands: CL.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.214 NA.6: 3 residues within 4Å: Chain B: G.213, D.214 Ligands: CL.7 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.214

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

CL.3: 3 residues within 4Å: Chain A: R.35, G.213 Ligands: NA.2 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain B: R.35 Ligands: NA.6 Ligand excluded by PLIP

1 x REF: 2,3,7,8-tetrahydroxychromeno[5,4,3-cde]chromene-5,10-dione(Non-covalent)

REF.5: 10 residues within 4Å: Chain A: L.100, D.101, Y.104, R.108 Chain B: L.100, D.101, Y.104, R.108 Ligands: GSH.1, GSH.4 17 PLIP interactions: 8 interactions with chain A, 9 interactions with chain B Hydrogen bonds: A:R.108, B:D.101, B:R.108 Water bridges: A:G.97, A:D.101, A:Y.104, B:D.101, B:D.101 Salt bridges: A:R.108, B:R.108 pi-Stacking: A:Y.104, A:Y.104, A:Y.104, B:Y.104, B:Y.104, B:Y.104 Hydrophobic interactions: B:Y.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Akumadu, B.O. et al., Molecular basis of inhibition of Schistosoma japonicum glutathione transferase by ellagic acid: Insights into biophysical and structural studies. Mol.Biochem.Parasitol. (2020)

Release Date

2019-06-19

Peptides

Glutathione S-transferase class-mu 26 kDa isozyme: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutathione S-transferase class-mu 26 kDa isozyme

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