SMTL ID : 5sym.1 (1 other biounit)

Cocrystal structure of the human acyl protein thioesterase 1 with an isoform-selective inhibitor, ML348

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x 71Q: N-[2-chloro-5-(trifluoromethyl)phenyl]-2-[4-(furan-2-carbonyl)piperazin-1-yl]acetamide(Non-covalent)

71Q.1: 21 residues within 4Å: Chain A: L.30, L.63, I.75, G.77, L.78, S.79, P.80, S.82, E.84, S.119, Q.120, W.145, L.146, R.149, L.176, V.177, P.178, F.181, L.184, T.185 Ligands: CL.8 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.75, A:L.78, A:W.145, A:L.176, A:V.177, A:F.181 Hydrogen bonds: A:R.149 Water bridges: A:G.77, A:E.84 Salt bridges: A:E.84

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

EDO.2: 4 residues within 4Å: Chain A: G.36, W.37, A.40, S.210 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.210, A:S.210 Water bridges: A:A.40 EDO.3: 5 residues within 4Å: Chain A: A.40, S.210, C.211, Q.212, M.215 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.211 EDO.4: 5 residues within 4Å: Chain A: K.97, T.131, T.132, Q.133, Q.134 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.97, A:T.131, A:T.132, A:Q.133 EDO.5: 6 residues within 4Å: Chain A: K.19, A.20, K.50, N.106, I.108 Ligands: CL.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.20, A:K.50 Water bridges: A:A.20 EDO.6: 4 residues within 4Å: Chain A: Q.83, E.84, E.86, L.148 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.84 Water bridges: A:E.84, A:E.86 EDO.10: 1 residues within 4Å: Chain A: M.65 No protein-ligand interaction detected (PLIP)

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 4 residues within 4Å: Chain A: A.16, K.19, A.20 Ligands: EDO.5 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain A: G.29, L.30, S.119, Q.120 Ligands: 71Q.1 Ligand excluded by PLIP CL.9: 6 residues within 4Å: Chain A: R.18, T.21, H.48, R.112, P.228, I.229 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Won, S.J. et al., Molecular Mechanism for Isoform-Selective Inhibition of Acyl Protein Thioesterases 1 and 2 (APT1 and APT2). ACS Chem. Biol. (2016)

Release Date

2016-10-26

Peptides

Acyl-protein thioesterase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Acyl-protein thioesterase 1

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