SMTL ID : 6x3l.1

Sortilin-Progranulin Interaction With Compound 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 7 residues within 4Å: Chain A: A.355, A.356, N.357, F.362, N.406, T.408, Y.414 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 8 residues within 4Å: Chain A: D.149, Y.150, K.152, S.580, M.581, N.582, D.603, R.655 No protein-ligand interaction detected (PLIP)

1 x UMJ: 1-benzyl-3-tert-butyl-1H-pyrazole-5-carboxylic acid(Non-covalent)

UMJ.3: 12 residues within 4Å: Chain A: Y.304, S.305, F.306, G.307, F.314, A.315, S.316, R.325, I.327, F.350, Y.351, I.353 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.304, A:Y.351, A:I.353 Hydrogen bonds: A:S.316, A:Y.351, A:Y.351 Salt bridges: A:R.325

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: V.112, T.570, G.571, L.572, W.586 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.112, A:T.570, A:T.570

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stachel, S.J. et al., Identification of potent inhibitors of the sortilin-progranulin interaction. Bioorg.Med.Chem.Lett. (2020)

Release Date

2020-08-12

Peptides

Sortilin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Sortilin