SMTL ID : 4gg2.1

The crystal structure of glutamate-bound human gamma-glutamyltranspeptidase 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

hetero-1-1-mer

Ligands

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

NAG.1: 8 residues within 4Å: Chain A: S.36, N.68, T.70, T.71, R.120, H.121, R.123 Ligands: IOD.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.121 Hydrogen bonds: A:H.121, A:R.123 Water bridges: A:N.68 NAG.2: 7 residues within 4Å: Chain A: F.88, T.90, M.91, F.92, N.93, Q.97, L.103 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.103 Hydrogen bonds: A:M.91, A:N.93, A:Q.97 NAG.3: 6 residues within 4Å: Chain A: N.203, G.204, T.207, A.208, A.223, N.227 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.203, A:N.203, A:N.227 NAG.4: 6 residues within 4Å: Chain A: H.236, P.237, L.238, N.239, V.246, Y.248 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.246 Hydrogen bonds: A:Y.248 Water bridges: A:N.239 NAG.5: 6 residues within 4Å: Chain A: E.313, V.314, N.317, F.323, Q.326, T.348 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.313 Hydrogen bonds: A:N.317, A:Q.326 NAG.11: 9 residues within 4Å: Chain A: R.294, T.336, H.337, P.338, I.339 Chain B: N.131, H.151, H.152, H.153 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.339 Hydrogen bonds: A:I.339 Water bridges: B:N.131

9 x IOD: IODIDE ION(Non-functional Binders)

IOD.6: 7 residues within 4Å: Chain A: S.36, A.37, V.38, I.66, H.121 Chain B: S.12 Ligands: NAG.1 Ligand excluded by PLIP IOD.7: 3 residues within 4Å: Chain A: K.21, Q.22, K.25 Ligand excluded by PLIP IOD.8: 4 residues within 4Å: Chain A: R.112, L.116, R.230, A.231 Ligand excluded by PLIP IOD.9: 3 residues within 4Å: Chain A: P.338, S.340, Y.341 Ligand excluded by PLIP IOD.10: 7 residues within 4Å: Chain A: V.167, L.183, P.184, Q.185, L.186 Chain B: R.29, G.34 Ligand excluded by PLIP IOD.13: 7 residues within 4Å: Chain A: R.294, T.336 Chain B: N.126, V.132, T.133, H.152, H.153 Ligand excluded by PLIP IOD.14: 3 residues within 4Å: Chain B: K.116, R.117, E.120 Ligand excluded by PLIP IOD.15: 3 residues within 4Å: Chain B: T.1, Y.23, G.93 Ligand excluded by PLIP IOD.16: 1 residues within 4Å: Chain B: F.53 Ligand excluded by PLIP

1 x GLU: GLUTAMIC ACID(Non-covalent)

GLU.12: 9 residues within 4Å: Chain A: R.80 Chain B: T.1, T.19, N.21, E.40, D.43, S.71, S.72, M.73 8 PLIP interactions: 6 interactions with chain B, 1 Ligand-Ligand interactions, 1 interactions with chain A Hydrogen bonds: B:T.1, B:T.19, B:N.21, B:E.40, B:S.72, B:M.73, E.12 Salt bridges: A:R.80

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

CL.17: 7 residues within 4Å: Chain A: D.19 Chain B: A.2, H.3, A.92, V.163, Q.165, K.182 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

West, M.B. et al., Novel Insights into Eukaryotic gamma-Glutamyltranspeptidase 1 from the Crystal Structure of the Glutamate-bound Human Enzyme. J.Biol.Chem. (2013)

Release Date

2013-09-25

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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