SMTL ID : 3dk4.1

Catalytic cycle of human glutathione reductase near 1 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

homo-dimer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: R.218, H.219 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.218, A:R.224 Salt bridges: A:R.218, A:H.219 SO4.6: 2 residues within 4Å: Chain B: R.218, H.219 4 PLIP interactions: 4 interactions with chain B Water bridges: B:R.218, B:R.224 Salt bridges: B:R.218, B:H.219

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

FAD.2: 39 residues within 4Å: Chain A: I.26, G.27, G.28, G.29, S.30, G.31, V.49, E.50, S.51, H.52, K.53, G.56, T.57, C.58, V.61, G.62, C.63, K.66, G.128, H.129, A.130, A.155, T.156, G.157, S.177, Y.197, I.198, M.202, R.291, N.294, L.298, G.330, D.331, L.337, L.338, T.339, P.340 Chain B: H.467, P.468 33 PLIP interactions: 31 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:T.57, A:I.198 Hydrogen bonds: A:S.30, A:S.30, A:G.31, A:S.51, A:T.57, A:T.57, A:C.58, A:K.66, A:A.130, A:A.130, A:D.331, A:L.337, A:T.339, A:T.339, A:T.339, B:H.467 Water bridges: A:G.29, A:G.29, A:E.50, A:S.51, A:H.52, A:K.53, A:T.57, A:T.156, A:G.157, A:G.157, A:G.158, A:N.294, A:A.342, B:H.467 pi-Stacking: A:Y.197 FAD.7: 39 residues within 4Å: Chain A: H.467, P.468 Chain B: I.26, G.27, G.28, G.29, S.30, G.31, V.49, E.50, S.51, H.52, K.53, G.56, T.57, C.58, V.61, G.62, C.63, K.66, G.128, H.129, A.130, A.155, T.156, G.157, S.177, Y.197, I.198, M.202, R.291, N.294, L.298, G.330, D.331, L.337, L.338, T.339, P.340 33 PLIP interactions: 31 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:T.57, B:I.198 Hydrogen bonds: B:S.30, B:S.30, B:G.31, B:S.51, B:H.52, B:T.57, B:T.57, B:T.57, B:C.58, B:K.66, B:A.130, B:A.130, B:Y.197, B:D.331, B:L.337, B:T.339, B:T.339, A:H.467 Water bridges: B:G.29, B:G.29, B:E.50, B:S.51, B:K.53, B:G.157, B:G.157, B:G.158, B:N.294, B:D.331, B:A.342, A:H.467 pi-Stacking: B:Y.197

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

NDP.3: 14 residues within 4Å: Chain A: G.194, A.195, G.196, Y.197, R.218, H.219, R.224, S.225, F.226, I.289, G.290, A.336, L.337, L.338 31 PLIP interactions: 31 interactions with chain A Hydrogen bonds: A:A.195, A:G.196, A:Y.197, A:S.225, A:A.336, A:L.337 Water bridges: A:I.198, A:I.198, A:R.218, A:R.218, A:R.218, A:R.218, A:R.218, A:R.218, A:R.218, A:H.219, A:R.224, A:S.225, A:I.289, A:R.291, A:T.369, A:T.369, A:T.369, A:T.379, A:T.379 Salt bridges: A:R.218, A:H.219, A:R.224 pi-Stacking: A:F.226 pi-Cation interactions: A:R.218, A:R.218 NDP.8: 14 residues within 4Å: Chain B: G.194, A.195, G.196, Y.197, R.218, H.219, R.224, S.225, F.226, I.289, G.290, A.336, L.337, L.338 26 PLIP interactions: 26 interactions with chain B Hydrogen bonds: B:A.195, B:G.196, B:Y.197, B:S.225, B:A.336, B:L.337 Water bridges: B:I.198, B:I.198, B:R.218, B:R.218, B:R.218, B:R.218, B:R.218, B:R.218, B:R.218, B:H.219, B:R.224, B:S.225, B:I.289, B:R.291 Salt bridges: B:R.218, B:H.219, B:R.224 pi-Stacking: B:F.226 pi-Cation interactions: B:R.218, B:R.218

4 x GSH: GLUTATHIONE(Non-covalent)

GSH.4: 12 residues within 4Å: Chain A: S.30, L.33, A.34, V.59, V.64, Y.114, T.339, I.343, R.347 Chain B: H.467, T.476 Ligands: GSH.5 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:I.343 Hydrogen bonds: A:Y.114 Water bridges: A:Y.114, A:R.347, A:R.347, A:R.347, A:R.347, B:E.473, B:E.473, B:T.476 Salt bridges: A:R.347, A:R.347 GSH.5: 12 residues within 4Å: Chain A: L.110, I.113, Y.114 Chain B: F.403, P.405, M.406, H.467, P.468, T.469, E.472, E.473 Ligands: GSH.4 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:Y.106, A:Y.114, B:M.406, B:E.472, B:E.473 Hydrophobic interactions: B:F.403 GSH.9: 12 residues within 4Å: Chain A: H.467, T.476 Chain B: S.30, L.33, A.34, V.59, V.64, Y.114, T.339, I.343, R.347 Ligands: GSH.10 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:I.343 Hydrogen bonds: B:Y.114, B:Y.114 Water bridges: B:Y.114, B:R.347, B:R.347, B:R.347, B:R.347, A:E.473, A:E.473, A:T.476 Salt bridges: B:R.347, B:R.347 GSH.10: 12 residues within 4Å: Chain A: F.403, P.405, M.406, H.467, P.468, T.469, E.472, E.473 Chain B: L.110, I.113, Y.114 Ligands: GSH.9 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Y.106, B:Y.106, A:M.406, A:E.473, A:E.473 Water bridges: B:Y.114 Hydrophobic interactions: A:F.403

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Berkholz, D.S. et al., Catalytic cycle of human glutathione reductase near 1 A resolution. J.Mol.Biol. (2008)

Release Date

2008-08-05

Peptides

Glutathione reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Glutathione reductase

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