SMTL ID : 7b4x.1

Notum complex with ARUK3002697

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.24 Å

Oligo State

monomer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: R.228, R.231, R.252 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.231, A:R.252 Salt bridges: A:R.228 SO4.2: 4 residues within 4Å: Chain A: R.332, H.335, R.339, C.355 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.339, A:R.339 Salt bridges: A:R.332, A:H.335, A:R.339 SO4.3: 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:E.122 Water bridges: A:R.56, A:Y.123 Salt bridges: A:R.56 SO4.4: 4 residues within 4Å: Chain A: R.167, V.225, E.227, R.230 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.227, A:E.227, A:E.227 Salt bridges: A:R.167, A:R.230 SO4.5: 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 SO4.14: 3 residues within 4Å: Chain A: P.356, V.357, H.358 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.357, A:H.358 SO4.15: 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

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

DMS.6: 6 residues within 4Å: Chain A: R.42, Y.94, W.95, W.96, N.97, A.98 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.97 pi-Cation interactions: A:W.96 DMS.7: 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.8: 3 residues within 4Å: Chain A: R.295, K.326, V.360 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.295, A:R.295 Water bridges: A:V.360

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

EDO.9: 6 residues within 4Å: Chain A: R.79, T.80, G.81, T.82, L.85, F.102 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.79, A:R.79, A:T.82, A:T.82 EDO.10: 5 residues within 4Å: Chain A: Y.245, Y.248, P.249, T.297, V.301 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.245 EDO.11: 4 residues within 4Å: Chain A: S.61, R.62, T.65, M.66 No protein-ligand interaction detected (PLIP) EDO.13: 6 residues within 4Å: Chain A: W.260, I.315, R.317, W.320, V.323, L.330 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.317, A:R.317, A:W.320 Water bridges: A:E.313, A:V.323

1 x SWT: 6-(4-methylphenyl)sulfanyl-2~{H}-[1,2,4]triazolo[4,3-b]pyridazin-3-one(Non-covalent)

SWT.12: 11 residues within 4Å: Chain A: G.50, W.51, Y.52, S.155, A.156, T.159, F.191, I.214, F.242, F.243, A.265 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.52, A:T.159, A:F.191, A:I.214, A:F.243, A:A.265 Hydrogen bonds: A:G.50, A:W.51, A:S.155, A:A.156 pi-Stacking: A:W.51, A:W.51, A:W.51, 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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