SMTL ID : 9ygx.1

I21T mutant human DJ-1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 0.97 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 8 residues within 4Å: Chain A: G.68, P.69, Y.70, V.73, I.94, E.97, Q.98, R.101 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.70, A:Y.70, A:E.97 EDO.2: 4 residues within 4Å: Chain A: K.125, E.150, K.151, D.152 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.150 Water bridges: A:G.153 EDO.3: 6 residues within 4Å: Chain A: S.6, R.30, G.33, I.34, K.35, V.36 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.6, A:V.36 EDO.4: 8 residues within 4Å: Chain A: G.78, N.79, C.109, A.110, H.129, L.131, A.132 Ligands: EDO.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.79, A:N.79, A:N.79 EDO.5: 11 residues within 4Å: Chain A: E.18, R.51, C.109, H.129, L.131, G.160, P.161 Chain B: R.31, P.187, L.188 Ligands: EDO.4 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 EDO.6: 8 residues within 4Å: Chain B: G.68, P.69, Y.70, V.73, I.94, E.97, Q.98, R.101 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.70, B:Y.70, B:E.97 EDO.7: 4 residues within 4Å: Chain B: K.125, E.150, K.151, D.152 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.150 Water bridges: B:G.153 EDO.8: 6 residues within 4Å: Chain B: S.6, R.30, G.33, I.34, K.35, V.36 2 PLIP interactions: 2 interactions with chain B Water bridges: B:S.6, B:V.36 EDO.9: 8 residues within 4Å: Chain B: G.78, N.79, C.109, A.110, H.129, L.131, A.132 Ligands: EDO.10 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.79, B:N.79, B:N.79 EDO.10: 11 residues within 4Å: Chain A: R.31, P.187, L.188 Chain B: E.18, R.51, C.109, H.129, L.131, G.160, P.161 Ligands: EDO.9 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Water bridges: B:R.51, B:R.51 Hydrogen bonds: A:R.31, A:R.31

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, J. et al., Environmental contributions to proton sharing in protein low barrier hydrogen bonds. To Be Published

Release Date

2025-10-15

Peptides

Parkinson disease protein 7: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Parkinson disease protein 7