SMTL ID : 5lx7.1

Cys-Gly dipeptidase GliJ mutant D38N

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x FE: FE (III) ION(Non-covalent)

FE.1: 5 residues within 4Å: Chain A: H.36, E.147, H.216, H.237 Ligands: TRS.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.147, A:H.216, A:H.237 FE.6: 5 residues within 4Å: Chain B: H.36, E.147, H.216, H.237 Ligands: TRS.10 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.147, B:H.216, B:H.237

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: W.379 Chain B: M.42, D.309, M.311, L.312 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:W.379, B:D.309 GOL.3: 3 residues within 4Å: Chain A: W.46, F.47 Chain B: K.384 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:K.384, B:K.384 Water bridges: A:F.47, A:Q.54, A:Q.54, A:Q.54 GOL.4: 4 residues within 4Å: Chain A: T.295, Y.299, R.334, G.335 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.299, A:Y.299 Water bridges: A:D.340 GOL.7: 5 residues within 4Å: Chain A: M.42, D.309, M.311, L.312 Chain B: W.379 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.309, B:W.379 GOL.8: 3 residues within 4Å: Chain A: K.384 Chain B: W.46, F.47 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Water bridges: B:F.47, B:Q.54, B:Q.54, B:Q.54 Hydrogen bonds: A:K.384, A:K.384 GOL.9: 4 residues within 4Å: Chain B: T.295, Y.299, R.334, G.335 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.299

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.5: 9 residues within 4Å: Chain A: H.36, N.38, E.147, H.174, H.216, H.237, D.307, G.310 Ligands: FE.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.36, A:H.216 Water bridges: A:N.38 TRS.10: 9 residues within 4Å: Chain B: H.36, N.38, E.147, H.174, H.216, H.237, D.307, G.310 Ligands: FE.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.36, B:H.216 Water bridges: B:N.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marion, A. et al., Gliotoxin Biosynthesis: Structure, Mechanism, and Metal Promiscuity of Carboxypeptidase GliJ. ACS Chem. Biol. (2017)

Release Date

2017-05-31

Peptides

Dipeptidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Dipeptidase