SMTL ID : 5sy9.1

Atomic resolution structure of E15Q mutant human DJ-1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

homo-dimer

Ligands

10 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 5 residues within 4Å: Chain A: P.69, Y.70, I.94, E.97, Q.98 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.70, A:Y.70, A:E.97, A:Q.98, A:R.101 EDO.2: 3 residues within 4Å: Chain A: K.151, E.173, A.174 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.151, A:A.170, A:A.174 EDO.3: 7 residues within 4Å: Chain A: Q.18, C.109, H.129, P.161 Chain B: R.31, P.187 Ligands: EDO.5 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Water bridges: A:R.51 Hydrogen bonds: B:R.31, B:R.31 EDO.4: 2 residues within 4Å: Chain A: E.119, F.122 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.119 EDO.5: 6 residues within 4Å: Chain A: N.79, C.109, H.129, L.131, A.132 Ligands: EDO.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.79 Water bridges: A:N.79 EDO.6: 5 residues within 4Å: Chain B: P.69, Y.70, I.94, E.97, Q.98 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.70, B:Y.70, B:E.97, B:Q.98, B:R.101 EDO.7: 3 residues within 4Å: Chain B: K.151, E.173, A.174 3 PLIP interactions: 3 interactions with chain B Water bridges: B:K.151, B:A.170, B:A.174 EDO.8: 7 residues within 4Å: Chain A: R.31, P.187 Chain B: Q.18, C.109, H.129, P.161 Ligands: EDO.10 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.31, A:R.31 Water bridges: B:R.51 EDO.9: 2 residues within 4Å: Chain B: E.119, F.122 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.119 EDO.10: 6 residues within 4Å: Chain B: N.79, C.109, H.129, L.131, A.132 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.79 Water bridges: B:N.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, J. et al., Short Carboxylic Acid-Carboxylate Hydrogen Bonds Can Have Fully Localized Protons. Biochemistry (2017)

Release Date

2016-12-28

Peptides

Protein deglycase DJ-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Protein deglycase DJ-1