SMTL ID : 7bm1.1

Notum_Valsartan complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.37 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 SO4.3: 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 SO4.4: 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 SO4.5: 5 residues within 4Å: Chain A: R.167, E.170, V.225, E.227, R.230 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.227 Salt bridges: A:R.167, A:R.230 SO4.6: 1 residues within 4Å: Chain A: R.68 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.68 SO4.7: 3 residues within 4Å: Chain A: Y.197, R.198, L.283 2 PLIP interactions: 2 interactions with chain A 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: 3 residues within 4Å: Chain A: N.19, V.22, R.136 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.19, A:R.136, A:R.136 Water bridges: A:E.133

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

EDO.8: 5 residues within 4Å: Chain A: Y.248, L.251, S.253, P.254, V.255 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.251, A:V.255 Water bridges: A:Y.248, A:L.251, A:V.255 EDO.9: 4 residues within 4Å: Chain A: S.40, R.41, R.42, K.147 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.41 EDO.10: 6 residues within 4Å: Chain A: W.260, I.315, R.317, W.320, V.323, L.330 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.317, A:R.317, A:W.320 Water bridges: A:V.323 EDO.11: 7 residues within 4Å: Chain A: R.79, T.80, G.81, T.82, L.85, F.102, I.316 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.79, A:R.79, A:T.82, A:T.82 EDO.12: 6 residues within 4Å: Chain A: E.264, L.310, S.311, H.312, E.313, P.373 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.312, A:H.312, A:E.313, A:P.373 EDO.13: 5 residues within 4Å: Chain A: E.48, G.49, S.154, S.155, I.314 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.49, A:S.155, A:S.155

1 x U35: (2~{S})-3-methyl-2-[pentanoyl-[[4-[2-(2~{H}-1,2,3,4-tetrazol-5-yl)phenyl]phenyl]methyl]amino]butanoic acid(Non-covalent)

U35.14: 10 residues within 4Å: Chain A: W.51, Y.52, A.156, F.191, L.192, P.210, F.243, A.265, T.268, V.269 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.51, A:Y.52, A:A.156, A:F.191, A:F.191, A:P.210, A:F.243, A:T.268, A:V.269, A:V.269 Hydrogen bonds: A:W.51 Water bridges: A:A.156, A:A.156 pi-Stacking: A:W.51

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

DMS.15: 4 residues within 4Å: Chain A: E.313, R.317, P.373, T.374 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.319 Salt bridges: A:E.313 DMS.16: 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 Hydrogen bonds: A:R.79 Salt bridges: A:E.48 pi-Cation interactions: A:W.75 DMS.17: 5 residues within 4Å: Chain A: R.42, Y.94, W.95, W.96, N.97 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.97, A:A.98 pi-Cation interactions: A:W.96

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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