SMTL ID : 4s0z.1

Crystal structure of M26V human DJ-1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: A.32, N.176, V.180 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.176 EDO.2: 3 residues within 4Å: Chain A: A.181, A.182, K.185 3 PLIP interactions: 3 interactions with chain A Water bridges: A:A.182, A:K.185, A:D.192 EDO.3: 6 residues within 4Å: Chain B: N.79, A.110, H.129, L.131 Ligands: EDO.4, ACT.10 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.79 Water bridges: B:N.79, B:N.79 EDO.4: 7 residues within 4Å: Chain A: R.31, P.187 Chain B: E.18, C.109, H.129, P.161 Ligands: EDO.3 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.31, A:R.31 Water bridges: B:R.51, B:R.51 EDO.6: 3 residues within 4Å: Chain B: A.32, N.176, V.180 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.176 EDO.7: 3 residues within 4Å: Chain B: A.181, A.182, K.185 3 PLIP interactions: 3 interactions with chain B Water bridges: B:A.182, B:K.185, B:D.192 EDO.8: 6 residues within 4Å: Chain A: N.79, A.110, H.129, L.131 Ligands: ACT.5, EDO.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.79 Water bridges: A:N.79, A:N.79 EDO.9: 7 residues within 4Å: Chain A: E.18, C.109, H.129, P.161 Chain B: R.31, P.187 Ligands: EDO.8 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.31, B:R.31 Water bridges: A:R.51, A:R.51

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 6 residues within 4Å: Chain A: N.79, A.110, L.131, A.132, K.135 Ligands: EDO.8 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.132 Hydrogen bonds: A:L.131 Water bridges: A:K.135, A:K.135 Salt bridges: A:K.135 ACT.10: 6 residues within 4Å: Chain B: N.79, A.110, L.131, A.132, K.135 Ligands: EDO.3 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:A.132 Hydrogen bonds: B:L.131 Water bridges: B:T.113, B:K.135, B:K.135 Salt bridges: B:K.135

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Milkovic, N.M. et al., Transient sampling of aggregation-prone conformations causes pathogenic instability of a parkinsonian mutant of DJ-1 at physiological temperature. Protein Sci. (2015)

Release Date

2015-08-05

Peptides

Protein DJ-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Protein DJ-1