SMTL ID : 7bce.1

Notum Fragment 718

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

monomer

Ligands

7 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 SO4.4: 2 residues within 4Å: Chain A: K.326, V.360 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.326, A:K.326 Salt bridges: A:K.326 SO4.5: 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 SO4.6: 4 residues within 4Å: Chain A: Y.94, W.95, W.96, N.97 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.96, A:N.97 SO4.7: 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 SO4.8: 2 residues within 4Å: Chain A: R.339, H.342 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.339, A:H.342 SO4.9: 2 residues within 4Å: Chain A: Y.197, R.198 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: 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

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

DMS.3: 6 residues within 4Å: Chain A: D.193, N.194, Q.196, P.210, T.211, D.270 No protein-ligand interaction detected (PLIP)

2 x LDV: 3-[(4-methylpiperidin-1-yl)methyl]-1H-indole(Non-covalent)

LDV.10: 5 residues within 4Å: Chain A: D.26, Y.63, K.117, E.122, Y.123 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:D.26, A:Y.63, A:Y.123 Salt bridges: A:D.26 LDV.11: 9 residues within 4Å: Chain A: G.50, W.51, Y.52, V.110, S.155, A.156, F.191, P.210, H.312 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.51, A:F.191, A:F.191, A:P.210 pi-Stacking: A:Y.52

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

2025-10-15

Peptides

Palmitoleoyl-protein carboxylesterase NOTUM: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Palmitoleoyl-protein carboxylesterase NOTUM

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