SMTL ID : 6rtj.1

Thioredoxin glutathione reductase from Schistosoma mansoni in complex with 1-[(dimethylamino)methyl]-2-naphthol at 1 hour of soaking

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 46 residues within 4Å: Chain A: I.113, G.114, G.115, G.116, S.117, G.118, G.119, L.136, D.137, Y.138, V.139, E.140, W.148, G.152, T.153, C.154, V.157, G.158, C.159, K.162, A.226, K.227, G.228, A.256, T.257, G.258, E.259, R.260, S.276, F.280, Y.296, V.297, E.300, R.393, K.399, V.400, G.432, D.433, Q.440, L.441, T.442, P.443, A.445, F.474 Chain B: H.571, P.572 31 PLIP interactions: 28 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:T.153, A:V.297 Hydrogen bonds: A:G.115, A:S.117, A:S.117, A:S.117, A:G.118, A:D.137, A:Y.138, A:T.153, A:T.153, A:C.154, A:K.162, A:G.228, A:G.228, A:D.433, A:L.441, A:T.442, B:H.571 Water bridges: A:G.116, A:G.119, A:D.137, A:G.152, A:V.155, A:G.258, A:G.258, A:E.259, A:A.445, B:H.571, B:H.571 pi-Stacking: A:Y.296 FAD.6: 46 residues within 4Å: Chain A: H.571, P.572 Chain B: I.113, G.114, G.115, G.116, S.117, G.118, G.119, L.136, D.137, Y.138, V.139, E.140, W.148, G.152, T.153, C.154, V.157, G.158, C.159, K.162, A.226, K.227, G.228, A.256, T.257, G.258, E.259, R.260, S.276, F.280, Y.296, V.297, E.300, R.393, K.399, V.400, G.432, D.433, Q.440, L.441, T.442, P.443, A.445, F.474 30 PLIP interactions: 27 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:T.153, B:V.297 Hydrogen bonds: B:G.115, B:S.117, B:S.117, B:S.117, B:G.118, B:Y.138, B:T.153, B:T.153, B:C.154, B:K.162, B:G.228, B:G.228, B:D.433, B:L.441, B:T.442, A:H.571 Water bridges: B:G.116, B:G.119, B:D.137, B:G.152, B:V.155, B:G.258, B:G.258, B:E.259, B:A.445, A:H.571, A:H.571 pi-Stacking: B:Y.296

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 4 residues within 4Å: Chain A: L.484, D.488, E.491, K.492 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.492 PG4.7: 4 residues within 4Å: Chain B: L.484, D.488, E.491, K.492 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.492

2 x FXH: 1-[(dimethylamino)methyl]naphthalen-2-ol(Non-covalent)

FXH.3: 10 residues within 4Å: Chain A: V.316, S.318, I.319, L.320, E.330, G.333, D.334, E.337, F.343, K.345 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.316, A:L.320, A:L.320, A:L.320, A:F.343, A:K.345 Hydrogen bonds: A:D.334 Salt bridges: A:E.330 pi-Cation interactions: A:K.345 FXH.8: 10 residues within 4Å: Chain B: V.316, S.318, I.319, L.320, E.330, G.333, D.334, E.337, F.343, K.345 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.316, B:L.320, B:L.320, B:L.320, B:F.343, B:K.345 Hydrogen bonds: B:E.330, B:D.334 Salt bridges: B:E.330 pi-Cation interactions: B:K.345

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.4: 8 residues within 4Å: Chain A: Y.138, N.225, A.226, K.227, T.239, D.240, K.241, Q.243 No protein-ligand interaction detected (PLIP) PGE.9: 8 residues within 4Å: Chain B: Y.138, N.225, A.226, K.227, T.239, D.240, K.241, Q.243 No protein-ligand interaction detected (PLIP)

2 x CA: CALCIUM ION(Non-covalent)

CA.5: 6 residues within 4Å: Chain A: D.565, T.567, I.568, T.579, T.580 Chain B: Q.447 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.565, A:T.567, A:T.579, H2O.8 CA.10: 6 residues within 4Å: Chain A: Q.447 Chain B: D.565, T.567, I.568, T.579, T.580 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.565, B:T.567, B:T.579, H2O.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Silvestri, I. et al., Ectopic suicide inhibition of thioredoxin glutathione reductase. Free Radic Biol Med (2020)

Release Date

2020-01-08

Peptides

Thioredoxin glutathione reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Thioredoxin glutathione reductase

Related Entries With Identical Sequence