SMTL ID : 6ny9.1

Alpha/beta hydrolase domain-containing protein 10 from mouse

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.66 Å

Oligo State

homo-trimer

Ligands

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 14 residues within 4Å: Chain A: Y.32, V.75, S.100, L.101, W.104, A.126, G.129, L.130, Y.157, Y.162, I.165, F.169, I.199, V.200 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.32, A:L.130, A:Y.162, A:I.199 Hydrogen bonds: A:S.100 Water bridges: A:L.101 MPD.6: 14 residues within 4Å: Chain B: Y.32, V.75, S.100, L.101, W.104, A.126, G.129, L.130, Y.157, Y.162, I.165, F.169, I.199, V.200 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.32, B:L.130, B:Y.162, B:I.199 Hydrogen bonds: B:S.100 Water bridges: B:L.101 MPD.11: 14 residues within 4Å: Chain C: Y.32, V.75, S.100, L.101, W.104, A.126, G.129, L.130, Y.157, Y.162, I.165, F.169, I.199, V.200 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:Y.32, C:L.130, C:Y.162, C:I.199 Hydrogen bonds: C:S.100 Water bridges: C:L.101

12 x SR: STRONTIUM ION(Non-functional Binders)

SR.2: 5 residues within 4Å: Chain A: N.7, R.8, S.9, N.13 Chain B: E.10 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:R.8, H2O.1, H2O.6, H2O.6, H2O.7 SR.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) SR.4: 2 residues within 4Å: Chain A: H.135, A.136 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.135 SR.5: 1 residues within 4Å: Chain A: D.243 No protein-ligand interaction detected (PLIP) SR.7: 5 residues within 4Å: Chain B: N.7, R.8, S.9, N.13 Chain C: E.10 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:R.8, H2O.9, H2O.14, H2O.14, H2O.15 SR.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) SR.9: 2 residues within 4Å: Chain B: H.135, A.136 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.135 SR.10: 1 residues within 4Å: Chain B: D.243 No protein-ligand interaction detected (PLIP) SR.12: 5 residues within 4Å: Chain A: E.10 Chain C: N.7, R.8, S.9, N.13 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:R.8, H2O.17, H2O.22, H2O.22, H2O.23 SR.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) SR.14: 2 residues within 4Å: Chain C: H.135, A.136 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:H.135 SR.15: 1 residues within 4Å: Chain C: D.243 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cao, Y. et al., ABHD10 is an S-depalmitoylase affecting redox homeostasis through peroxiredoxin-5. Nat.Chem.Biol. (2019)

Release Date

2020-01-22

Peptides

Mycophenolic acid acyl-glucuronide esterase, mitochondrial: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
B

Mycophenolic acid acyl-glucuronide esterase, mitochondrial