SMTL ID : 2x99.1

Thioredoxin glutathione reductase from Schistosoma mansoni in complex with NADPH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 37 residues within 4Å: Chain A: I.113, G.114, G.115, G.116, S.117, G.118, L.136, D.137, Y.138, V.139, 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, S.276, V.297, R.393, G.432, D.433, Q.440, L.441, T.442, P.443, F.474 Chain B: H.571, P.572 Ligands: NDP.2, GSH.4 33 PLIP interactions: 31 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:T.153, A:V.297 Hydrogen bonds: A:G.115, 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:I.431, A:D.433, A:Q.440, A:T.442, A:T.442, A:T.442, B:H.571 Water bridges: A:G.116, A:G.116, A:D.137, A:E.140, A:G.152, A:G.258, A:G.258, A:E.259, A:R.393, A:D.433, A:A.445, B:H.571 FAD.17: 37 residues within 4Å: Chain A: H.571, P.572 Chain B: I.113, G.114, G.115, G.116, S.117, G.118, L.136, D.137, Y.138, V.139, 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, S.276, V.297, R.393, G.432, D.433, Q.440, L.441, T.442, P.443, F.474 Ligands: NDP.18, GSH.20 32 PLIP interactions: 30 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:T.153, B:V.297 Hydrogen bonds: B:G.115, B:S.117, B:S.117, B:G.118, B:Y.138, B:T.153, B:C.154, B:K.162, B:G.228, B:G.228, B:I.431, B:D.433, B:Q.440, B:T.442, B:T.442, B:T.442, B:T.442, A:H.571 Water bridges: B:G.116, B:G.116, B:D.137, B:E.140, B:G.152, B:T.153, B:G.258, B:G.258, B:E.259, B:R.393, B:A.445, A:H.571

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.2: 20 residues within 4Å: Chain A: K.162, G.293, A.294, S.295, Y.296, V.297, E.300, R.317, S.318, R.322, A.390, V.391, G.392, R.393, Q.440, L.441, T.472, F.474 Ligands: FAD.1, PG4.14 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:Y.296, A:V.297 Hydrogen bonds: A:K.162, A:A.294, A:A.294, A:S.295, A:V.297, A:R.317, A:R.317, A:S.318, A:S.318, A:A.390, A:G.392, A:T.472 Water bridges: A:G.293, A:A.298, A:A.298, A:R.317, A:I.319, A:Q.440, A:T.472 Salt bridges: A:R.317, A:R.322 pi-Stacking: A:Y.296 pi-Cation interactions: A:R.317, A:R.317 NDP.18: 20 residues within 4Å: Chain B: K.162, G.293, A.294, S.295, Y.296, V.297, E.300, R.317, S.318, R.322, A.390, V.391, G.392, R.393, Q.440, L.441, T.472, F.474 Ligands: FAD.17, PG4.30 27 PLIP interactions: 27 interactions with chain B Hydrophobic interactions: B:Y.296, B:V.297 Hydrogen bonds: B:K.162, B:A.294, B:A.294, B:S.295, B:Y.296, B:V.297, B:R.317, B:R.317, B:S.318, B:S.318, B:A.390, B:G.392, B:T.472 Water bridges: B:G.293, B:A.298, B:A.298, B:R.317, B:I.319, B:Q.440, B:T.472 Salt bridges: B:R.317, B:R.322 pi-Stacking: B:Y.296 pi-Cation interactions: B:R.317, B:R.317

4 x GSH: GLUTATHIONE(Non-covalent)

GSH.3: 10 residues within 4Å: Chain A: K.25, C.28, Y.30, Q.60, T.71, V.72, P.73, D.84, S.85, Q.86 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.71 Hydrogen bonds: A:Q.60, A:V.72, A:V.72, A:D.84, A:S.85, A:Q.86 Salt bridges: A:K.25 GSH.4: 11 residues within 4Å: Chain A: K.227, G.228, R.229, L.230, Q.396, L.397, L.401, C.402, T.404, V.405 Ligands: FAD.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.397 Hydrogen bonds: A:G.228, A:L.230, A:L.401 Salt bridges: A:K.227 GSH.19: 10 residues within 4Å: Chain B: K.25, C.28, Y.30, Q.60, T.71, V.72, P.73, D.84, S.85, Q.86 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:T.71 Hydrogen bonds: B:Q.60, B:V.72, B:V.72, B:D.84, B:S.85, B:Q.86 Salt bridges: B:K.25 GSH.20: 11 residues within 4Å: Chain B: K.227, G.228, R.229, L.230, Q.396, L.397, L.401, C.402, T.404, V.405 Ligands: FAD.17 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.397 Hydrogen bonds: B:G.228, B:L.230, B:L.401 Salt bridges: B:K.227

2 x CA: CALCIUM ION(Non-covalent)

CA.5: 5 residues within 4Å: Chain A: D.565, T.567, 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.4 CA.21: 5 residues within 4Å: Chain A: Q.447 Chain B: D.565, T.567, 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.11

12 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 5 residues within 4Å: Chain A: T.461, E.462, L.463, T.464, D.465 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.463 Water bridges: A:D.465 PEG.7: 6 residues within 4Å: Chain A: S.172, H.173, E.176, A.306, S.307, H.339 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.172, A:E.176, A:E.176 Water bridges: A:H.173, A:H.173 PEG.8: 4 residues within 4Å: Chain A: E.509, W.510, P.542 Chain B: Q.167 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.167 PEG.9: 6 residues within 4Å: Chain A: K.13, T.14, D.420, Y.429, R.455, L.456 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.14, A:R.455, A:R.455 PEG.10: 3 residues within 4Å: Chain A: W.10, L.53, N.55 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.55 PEG.16: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PEG.22: 5 residues within 4Å: Chain B: T.461, E.462, L.463, T.464, D.465 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.463 PEG.23: 6 residues within 4Å: Chain B: S.172, H.173, E.176, A.306, S.307, H.339 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.172, B:E.176 Water bridges: B:H.173 PEG.24: 4 residues within 4Å: Chain A: Q.167 Chain B: E.509, W.510, P.542 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.167 PEG.25: 6 residues within 4Å: Chain B: K.13, T.14, D.420, Y.429, R.455, L.456 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.14, B:T.14, B:D.420, B:R.455, B:R.455 PEG.26: 3 residues within 4Å: Chain B: W.10, L.53, N.55 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.55 PEG.32: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

PG4.11: 10 residues within 4Å: Chain A: S.318, I.319, L.320, Q.326, E.330, G.333, D.334, E.337, F.343, K.345 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.320, A:L.320, A:D.334, A:D.334 PG4.12: 6 residues within 4Å: Chain A: Y.138, N.225, T.239, D.240, K.241, Q.243 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.225 PG4.13: 3 residues within 4Å: Chain A: D.488, E.491, K.492 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.492 PG4.14: 8 residues within 4Å: Chain A: K.262, Y.263, P.264, E.265, V.348, P.349, V.391 Ligands: NDP.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.262, A:E.265 PG4.15: 7 residues within 4Å: Chain A: N.102, E.103, S.104, K.105, Y.106, D.107, K.132 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.103, A:E.103, A:E.103, A:S.104 PG4.27: 10 residues within 4Å: Chain B: S.318, I.319, L.320, Q.326, E.330, G.333, D.334, E.337, F.343, K.345 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.320, B:L.320, B:D.334 PG4.28: 6 residues within 4Å: Chain B: Y.138, N.225, T.239, D.240, K.241, Q.243 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.138 Water bridges: B:N.225 PG4.29: 3 residues within 4Å: Chain B: D.488, E.491, K.492 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.492 PG4.30: 8 residues within 4Å: Chain B: K.262, Y.263, P.264, E.265, V.348, P.349, V.391 Ligands: NDP.18 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.262, B:E.265 PG4.31: 7 residues within 4Å: Chain B: N.102, E.103, S.104, K.105, Y.106, D.107, K.132 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.103, B:E.103, B:S.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Angelucci, F. et al., Mapping the Catalytic Cycle of Schistosoma Mansoni Thioredoxin Glutathione Reductase by X-Ray Crystallography. J.Biol.Chem. (2010)

Release Date

2010-07-21

Peptides

THIOREDOXIN GLUTATHIONE REDUCTASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

THIOREDOXIN GLUTATHIONE REDUCTASE

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