SMTL ID : 6yv4.1

STRUCTURE OF THE WNT DEACYLASE NOTUM IN COMPLEX WITH A PYRROLE-3-CARBOXYLIC ACID FRAGMENT 686

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x PQK: 1-cyclopropyl-2,5-dimethyl-pyrrole-3-carboxylic acid(Non-covalent)

PQK.1: 11 residues within 4Å: Chain A: W.51, Y.52, S.155, A.156, T.159, F.191, P.210, I.214, F.243, A.265, V.269 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.51, A:F.191, A:F.191, A:P.210, A:I.214, A:F.243, A:V.269 Hydrogen bonds: A:W.51, A:A.156 pi-Stacking: A:Y.52, A:F.191

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 5 residues within 4Å: Chain A: N.19, S.21, S.116, R.136 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.19, A:S.116

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: R.13, H.15, R.141 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.13, A:H.15, A:R.141 SO4.9: 4 residues within 4Å: Chain A: T.65, M.66, R.67, R.68 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.67, A:R.68

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

EDO.4: 4 residues within 4Å: Chain A: P.351, P.356, V.357, H.358 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.357, A:H.358, A:H.358 EDO.5: 1 residues within 4Å: Chain A: R.339 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.339 EDO.6: 5 residues within 4Å: Chain A: R.56, K.120, N.121, E.122, Y.220 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.120, A:N.121, A:E.122, A:Y.220 EDO.7: 5 residues within 4Å: Chain A: E.264, L.310, S.311, H.312, P.373 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.312, A:P.373 EDO.8: 3 residues within 4Å: Chain A: L.129, Q.132 Ligands: NAG.2 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mahy, W. et al., Screening of a Custom-Designed Acid Fragment Library Identifies 1-Phenylpyrroles and 1-Phenylpyrrolidines as Inhibitors of Notum Carboxylesterase Activity. J.Med.Chem. (2020)

Release Date

2020-05-06

Peptides

Palmitoleoyl-protein carboxylesterase NOTUM: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Palmitoleoyl-protein carboxylesterase NOTUM

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