SMTL ID : 1m0w.1

Yeast Glutathione Synthase Bound to gamma-glutamyl-cysteine, AMP-PNP and 2 Magnesium Ions

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: E.146 Ligands: ANP.6 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.146, H2O.10, H2O.12, H2O.13 MG.2: 4 residues within 4Å: Chain A: E.146, N.148, E.386 Ligands: ANP.6 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.146, A:E.146, A:E.386, H2O.1 MG.8: 2 residues within 4Å: Chain B: E.146 Ligands: ANP.14 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.146, H2O.26, H2O.28, H2O.28 MG.9: 5 residues within 4Å: Chain B: E.146, N.148, K.324, E.386 Ligands: ANP.14 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.146, B:E.146, B:E.386, H2O.29

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

SO4.3: 2 residues within 4Å: Chain A: K.136, K.137 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.137 Water bridges: A:G.138 Salt bridges: A:K.137 SO4.4: 1 residues within 4Å: Chain A: R.163 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.163, A:R.163 Salt bridges: A:R.163 SO4.5: 5 residues within 4Å: Chain A: G.389, N.390, N.391, Y.393 Ligands: ANP.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.391, A:N.391, A:Y.393 Salt bridges: A:K.469 SO4.10: 1 residues within 4Å: Chain B: R.366 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.370 Salt bridges: B:R.366 SO4.11: 2 residues within 4Å: Chain B: K.136, K.137 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.137 Water bridges: B:G.138 SO4.12: 1 residues within 4Å: Chain B: R.163 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.163 Salt bridges: B:R.163 SO4.13: 5 residues within 4Å: Chain B: G.389, N.390, N.391, Y.393 Ligands: ANP.14 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.391, B:N.391 Water bridges: B:K.469, B:K.469 Salt bridges: B:K.469

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.6: 20 residues within 4Å: Chain A: L.132, V.145, E.146, K.324, V.380, K.382, E.386, G.387, N.391, Y.393, M.415, E.416, L.417, I.418, E.442, K.469 Ligands: MG.1, MG.2, SO4.5, 3GC.7 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:K.324, A:G.387, A:N.391, A:E.416, A:I.418, A:E.442, A:K.469 Water bridges: A:E.146, A:E.146, A:E.442 Salt bridges: A:K.324, A:K.382 ANP.14: 19 residues within 4Å: Chain B: L.132, V.145, E.146, K.324, V.380, K.382, E.386, N.391, Y.393, M.415, E.416, L.417, I.418, E.442, K.469 Ligands: MG.8, MG.9, SO4.13, 3GC.15 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:K.324, B:N.391, B:Y.393, B:E.416, B:I.418, B:E.442, B:K.469 Water bridges: B:E.442, B:E.442, B:E.442 Salt bridges: B:K.324, B:K.382

2 x 3GC: GAMMA-GLUTAMYLCYSTEINE(Non-covalent)

3GC.7: 12 residues within 4Å: Chain A: R.128, N.148, V.150, S.151, V.152, S.153, E.228, N.230, Q.234, R.285, Y.288 Ligands: ANP.6 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.288 Hydrogen bonds: A:S.151, A:S.153, A:E.228, A:N.230, A:Q.234, A:Y.288 Water bridges: A:E.228, A:E.228 Salt bridges: A:R.128, A:R.285 3GC.15: 13 residues within 4Å: Chain B: R.128, N.148, V.150, S.151, V.152, S.153, Q.225, E.228, N.230, Q.234, R.285, Y.288 Ligands: ANP.14 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:Y.288 Hydrogen bonds: B:S.151, B:S.153, B:Q.225, B:N.230, B:Q.234 Water bridges: B:N.148, B:Y.288 Salt bridges: B:R.128, B:R.285

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gogos, A. et al., Large Conformational Changes in the Catalytic Cycle of Glutathione Synthase. Structure (2002)

Release Date

2002-12-11

Peptides

glutathione synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

glutathione synthetase

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