SMTL ID : 6xpb.1

Structure of human GGT1 in complex with 2-amino-4-(((1-((carboxymethyl)amino)-1-oxobutan-2-yl)oxy)(phenoxy)phosphoryl)butanoic acid (ACPB) molecule

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

hetero-1-1-mer

Ligands

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 7 residues within 4Å: Chain A: S.36, N.68, T.70, T.71, R.120, H.121, R.123 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:H.121 Hydrogen bonds: A:N.68, A:R.123 Water bridges: A:T.70, A:H.121, A:R.123, B:S.12 NAG.2: 5 residues within 4Å: Chain A: F.88, T.90, M.91, N.93, Q.97 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Q.97 Hydrogen bonds: A:M.91, A:N.93, A:Q.97 Water bridges: A:T.90, A:M.91 NAG.3: 5 residues within 4Å: Chain A: E.313, N.317, F.323, Q.326, P.349 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:E.313 Hydrogen bonds: A:E.313, A:E.313, A:N.317, A:Q.326 Water bridges: A:Q.326 NAG.4: 3 residues within 4Å: Chain A: N.239, V.246, Y.248 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.246 Water bridges: A:N.239, A:N.239, A:N.239 NAG.5: 4 residues within 4Å: Chain A: N.203, G.204, T.207, N.227 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.203, A:N.227 NAG.8: 7 residues within 4Å: Chain A: T.336, H.337, P.338, I.339 Chain B: N.131, H.151, H.153 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:I.339 Hydrogen bonds: A:I.339, B:H.151 Water bridges: B:N.131, B:H.153

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 6 residues within 4Å: Chain A: V.167, L.183, P.184, Q.185, L.186 Chain B: R.29 Ligand excluded by PLIP CL.9: 6 residues within 4Å: Chain A: D.19 Chain B: T.1, A.2, H.3, V.163, Q.165 Ligand excluded by PLIP

1 x NA: SODIUM ION(Non-functional Binders)

NA.7: 5 residues within 4Å: Chain A: N.8, H.9 Chain B: K.116, A.176, A.177 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.176 Water bridges: B:A.176

1 x V7D: 2,2-diamino-4-[(S)-({(2S)-1-[(carboxymethyl)amino]-1-oxobutan-2-yl}oxy)(hydroxy)phosphanyl]butanoic acid(Covalent)

V7D.10: 17 residues within 4Å: Chain A: R.80 Chain B: T.1, T.19, N.21, L.22, Y.23, E.40, D.43, S.71, S.72, M.73, A.92, G.93, G.94, I.97, F.160, K.182 17 PLIP interactions: 14 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:T.1, B:Y.23, B:D.43, B:D.43, B:S.72, B:S.72, B:M.73, B:G.93, B:G.94 Water bridges: B:T.1, B:T.19, B:N.21, B:G.93, A:H.54, A:R.300 Salt bridges: B:K.182, A:R.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Terzyan, S.S. et al., Crystal structures of glutathione- and inhibitor-bound human GGT1: critical interactions within the cysteinylglycine binding site. J.Biol.Chem. (2020)

Release Date

2020-11-25

Peptides

Glutathione hydrolase 1 heavy chain: A
Glutathione hydrolase 1 light chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glutathione hydrolase 1 heavy chain

Glutathione hydrolase 1 light chain

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