SMTL ID : 5v4q.1

Crystal Structure of human GGT1 in complex with DON

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-mer

Ligands

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

NAG.1: 6 residues within 4Å: Chain A: N.68, T.71, H.121, R.123 Chain B: D.10, S.12 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.68, A:N.68, A:R.123 Water bridges: B:S.12 NAG.2: 6 residues within 4Å: Chain A: F.88, T.90, M.91, N.93, Q.97, L.103 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Q.97, A:L.103 Hydrogen bonds: A:M.91, A:N.93, A:Q.97 Water bridges: A:M.91 NAG.3: 4 residues within 4Å: Chain A: E.313, N.317, F.323, Q.326 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, A:Q.326 NAG.4: 2 residues within 4Å: Chain A: N.239, Y.248 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.239 Water bridges: 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: 5 residues within 4Å: Chain A: T.336, P.338, I.339 Chain B: N.131, H.151 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:H.151, A:I.339 Water bridges: B:N.131, B:N.131 Hydrophobic interactions: A:I.339

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

CL.6: 5 residues within 4Å: Chain A: L.183, P.184, Q.185, L.186 Chain B: R.29 Ligand excluded by PLIP CL.10: 6 residues within 4Å: Chain A: D.19 Chain B: A.2, H.3, A.92, V.163, Q.165 Ligand excluded by PLIP

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

NA.7: 4 residues within 4Å: Chain A: H.9 Chain B: K.116, A.176, A.177 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.176

1 x 8WY: 5,5-dihydroxy-L-norleucine(Covalent)

8WY.9: 13 residues within 4Å: Chain A: S.55, R.80 Chain B: T.1, T.19, N.21, E.40, D.43, S.71, S.72, M.73, G.93, G.94, I.97 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.40, B:D.43, B:S.72, B:S.72, B:M.73, B:G.93, B:G.94 Water bridges: B:T.1 Salt bridges: A:R.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Terzyan, S.S. et al., Structure of 6-diazo-5-oxo-norleucine-bound human gamma-glutamyl transpeptidase 1, a novel mechanism of inactivation. Protein Sci. (2017)

Release Date

2017-04-19

Peptides

Gamma-glutamyltranspeptidase 1 heavy chain: A
Gamma-glutamyltranspeptidase 1 light chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Gamma-glutamyltranspeptidase 1 heavy chain

Gamma-glutamyltranspeptidase 1 light chain

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