SMTL ID : 7b9n.1

Notum Fragment 588

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.38 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: T.65, M.66, R.67, R.68 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.67, A:R.68 Water bridges: A:D.74 Salt bridges: A:R.68 SO4.6: 3 residues within 4Å: Chain A: R.295, K.326, V.360 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.360 Water bridges: A:R.295, A:K.326, A:V.360 Salt bridges: A:R.295, A:K.326 SO4.7: 5 residues within 4Å: Chain A: R.56, K.120, N.121, E.122, Y.220 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.122 Water bridges: A:Y.123 Salt bridges: A:R.56 SO4.8: 4 residues within 4Å: Chain A: V.279, Q.280, E.281, R.284 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.281 Salt bridges: A:R.284 SO4.9: 4 residues within 4Å: Chain A: R.167, E.170, V.225, E.227 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.227 Salt bridges: A:R.167 SO4.10: 3 residues within 4Å: Chain A: Y.197, R.198, L.283 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.197 Water bridges: A:Y.197 Salt bridges: A:R.198

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

NAG.2: 2 residues within 4Å: Chain A: N.19, V.22 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.19

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 6 residues within 4Å: Chain A: Y.248, L.251, R.252, S.253, P.254, V.255 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.255 DMS.4: 3 residues within 4Å: Chain A: L.175, G.176, Y.177 No protein-ligand interaction detected (PLIP) DMS.5: 5 residues within 4Å: Chain A: R.42, Y.94, W.95, W.96, N.97 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.42, A:R.42, A:N.97, A:A.98 pi-Cation interactions: A:W.96

2 x N9J: benzyl hydroxycarbamate(Non-covalent)

N9J.11: 11 residues within 4Å: Chain A: W.51, Y.52, S.155, A.156, T.159, F.191, I.214, F.242, A.265, H.312 Ligands: N9J.12 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.52, A:T.159, A:F.191, A:I.214, A:I.214, A:F.242 Hydrogen bonds: A:W.51 N9J.12: 11 residues within 4Å: Chain A: F.191, L.192, D.193, N.194, Q.196, F.243, A.265, Q.266, V.269, D.270 Ligands: N9J.11 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.191, A:V.269 Hydrogen bonds: A:N.194, A:N.194, A:D.270 pi-Stacking: A:F.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Y. et al., Structural Analysis and Development of Notum Fragment Screening Hits. Acs Chem Neurosci (2022)

Release Date

2022-01-12

Peptides

Palmitoleoyl-protein carboxylesterase NOTUM: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Palmitoleoyl-protein carboxylesterase NOTUM

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