SMTL ID : 6ap9.1

Crystal Structure of hGSTP1-1 with S-nitrosation of Cys101

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-dimer

Ligands

2 x GSH: GLUTATHIONE(Non-covalent)

GSH.1: 13 residues within 4Å: Chain A: Y.8, F.9, R.14, W.39, K.45, G.51, Q.52, L.53, P.54, Q.65, S.66 Chain B: D.99 Ligands: GDS.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:Q.52, A:L.53, A:L.53, A:Q.65, A:Q.65, A:Q.65, A:S.66 Water bridges: A:R.14, A:Q.65, A:N.67, A:E.98 Salt bridges: A:R.14, A:K.45 GSH.7: 12 residues within 4Å: Chain A: D.99 Chain B: Y.8, F.9, R.14, W.39, K.45, Q.52, L.53, P.54, Q.65, S.66 Ligands: GDS.8 13 PLIP interactions: 1 interactions with chain A, 12 interactions with chain B Water bridges: A:D.99, B:Q.65, B:N.67, B:N.67 Hydrogen bonds: B:W.39, B:Q.52, B:L.53, B:L.53, B:Q.65, B:Q.65, B:S.66 Salt bridges: B:R.14, B:K.45

2 x GDS: OXIDIZED GLUTATHIONE DISULFIDE(Non-covalent)

GDS.2: 17 residues within 4Å: Chain A: Y.8, F.9, R.14, W.39, K.45, G.51, Q.52, L.53, P.54, Q.65, S.66, I.105, S.106, Y.109, T.110 Chain B: D.99 Ligands: GSH.1 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.105, A:T.110 Hydrogen bonds: A:Q.52, A:L.53, A:L.53, A:Q.65, A:Q.65, A:S.66, A:S.106 Water bridges: A:R.14, A:L.53, A:Q.65, A:N.67, A:N.67 Salt bridges: A:R.14, A:K.45 GDS.8: 17 residues within 4Å: Chain A: D.99 Chain B: Y.8, F.9, R.14, W.39, K.45, G.51, Q.52, L.53, P.54, Q.65, S.66, I.105, S.106, Y.109, T.110 Ligands: GSH.7 15 PLIP interactions: 1 interactions with chain A, 14 interactions with chain B Water bridges: A:D.99, B:Q.65, B:N.67, B:N.67, B:N.67 Hydrophobic interactions: B:T.110 Hydrogen bonds: B:Q.52, B:L.53, B:L.53, B:Q.65, B:Q.65, B:S.66, B:S.106 Salt bridges: B:R.14, B:K.45

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 5 residues within 4Å: Chain A: A.23, W.29, E.31, F.193, E.198 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.31 Water bridges: A:W.29, A:F.193 Salt bridges: A:E.198 MES.9: 4 residues within 4Å: Chain B: A.23, W.29, F.193, E.198 3 PLIP interactions: 3 interactions with chain B Water bridges: B:F.193, B:E.198 Salt bridges: B:E.198

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 4 residues within 4Å: Chain A: F.143, Q.148, I.149, R.187 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Q.148, A:I.149 Water bridges: A:Q.25, A:R.187, A:R.187, A:R.187 Salt bridges: A:R.187 ACT.10: 4 residues within 4Å: Chain B: F.143, Q.148, I.149, R.187 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Q.148, B:I.149 Water bridges: B:Q.25, B:Q.25, B:R.187, B:R.187 Salt bridges: B:R.187

5 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.5: 2 residues within 4Å: Chain A: G.78, Q.148 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:G.78, H2O.4, H2O.4 CA.6: 1 residues within 4Å: Chain A: D.58 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.58, H2O.6, H2O.7, H2O.9, H2O.10 CA.11: 2 residues within 4Å: Chain B: G.78, Q.148 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.19, H2O.20, H2O.21, H2O.22, H2O.24 CA.12: 2 residues within 4Å: Chain B: K.30, E.31 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.31, H2O.15, H2O.21, H2O.23 CA.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumari, V. et al., Cysteine S-nitrosylation of hGSTP1-1 by nitric oxide (NO)-releasing prodrugs. to be published

Release Date

2018-08-22

Peptides

Glutathione S-transferase P: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutathione S-transferase P

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