SMTL ID : 7bo5.1

Notum Fragment_130_methyEster (methyl 4H-thieno[3,2-c]chromene-2-carboxylate)

Coordinates

PDB Format Compare

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 SO4.7: 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:Y.123, 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: 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 SO4.10: 3 residues within 4Å: Chain A: Y.197, R.198, L.283 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.197 Salt bridges: A:R.198 SO4.11: 1 residues within 4Å: Chain A: R.68 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.68

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

NAG.2: 3 residues within 4Å: Chain A: N.19, V.22, L.129 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.19

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

DMS.3: 5 residues within 4Å: Chain A: Y.94, W.95, W.96, N.97, A.98 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.97, A:A.98 pi-Cation interactions: A:W.96 DMS.4: 8 residues within 4Å: Chain A: Y.33, E.48, R.68, W.75, P.76, R.79, F.102, P.104 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.79 Salt bridges: A:E.48 pi-Cation interactions: A:W.75

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain A: Y.248, L.251, R.252, S.253, P.254, V.255 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.248, A:R.252, A:V.255, A:V.255

1 x U65: methyl 3~{a},4-dihydro-3~{H}-thieno[3,2-c]chromene-2-carboxylate(Non-covalent)

U65.6: 14 residues within 4Å: Chain A: G.50, W.51, Y.52, S.155, A.156, T.159, F.191, P.210, I.214, F.242, F.243, A.265, V.269, H.312 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.51, A:T.159, A:F.191, A:F.191, A:P.210, A:I.214, A:F.242, A:F.243, A:F.243 Hydrogen bonds: A:G.50, A:W.51, A:A.156 Salt bridges: A:H.312 pi-Stacking: A:Y.52, A:F.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Y. et al., Notum Inhibitor. 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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