SMTL ID : 7bli.1

Notum-Bepridil complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.47 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: T.65, M.66, R.67, R.68 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.67, A:R.68 Salt bridges: A:R.68 SO4.4: 5 residues within 4Å: Chain A: R.56, K.120, N.121, E.122, Y.220 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.122, A:Y.220 Water bridges: A:R.56, A:R.56, A:Y.123 Salt bridges: A:R.56 SO4.5: 3 residues within 4Å: Chain A: L.175, G.176, Y.177 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.177 SO4.6: 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 SO4.7: 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

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 BEP: 1-ISOBUTOXY-2-PYRROLIDINO-3[N-BENZYLANILINO] PROPANE(Non-covalent)

BEP.3: 14 residues within 4Å: Chain A: Y.52, S.155, A.156, T.159, F.191, L.192, D.193, P.210, T.211, I.214, F.242, F.243, Q.266, V.269 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.52, A:A.156, A:T.159, A:F.191, A:P.210, A:P.210, A:T.211, A:I.214, A:F.242, A:V.269 Hydrogen bonds: A:Y.52 pi-Stacking: A:F.191, A:F.243, A:F.243

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

DMS.8: 7 residues within 4Å: Chain A: Y.33, E.48, W.75, P.76, R.79, F.102, P.104 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.68 Salt bridges: A:E.48 pi-Cation interactions: A:W.75 DMS.9: 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

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Y. et al., Notum Fragment Screen. To Be Published

Release Date

2022-03-02

Peptides

Palmitoleoyl-protein carboxylesterase NOTUM: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Palmitoleoyl-protein carboxylesterase NOTUM

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