SMTL ID : 8b4w.1

X-ray structure of furin (PCSK3) in complex with 1H-isoindol-3-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

3 x F05: 1H-isoindol-3-amine(Non-covalent)

F05.1: 14 residues within 4Å: Chain A: S.146, W.147, G.148, P.149, D.151, W.184, A.185, S.186, G.187, N.188, D.199, T.202, T.260, S.261 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.185 Hydrogen bonds: A:W.184, A:A.185, A:D.199 Water bridges: A:D.151 F05.2: 10 residues within 4Å: Chain A: M.119, L.120, V.124, E.129, W.147, G.148, P.149, E.150, D.157, Y.201 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.120, A:V.124, A:W.147 Hydrogen bonds: A:E.129 Water bridges: A:E.150, A:D.157, A:D.157 F05.3: 4 residues within 4Å: Chain A: A.160, R.161, E.164, E.165 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.161 Water bridges: A:A.160, A:R.161

3 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: D.67, D.70, D.72, D.74, R.118 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.67, A:D.72, A:D.74, H2O.11, H2O.16 CA.5: 8 residues within 4Å: Chain A: D.8, D.55, V.98, A.99, N.101, V.103, G.105, V.106 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.8, A:D.55, A:V.98, A:V.103, A:G.105 CA.6: 6 residues within 4Å: Chain A: D.151, G.187, D.194, C.196, D.199, E.224 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.194, A:E.224, H2O.7, H2O.10, H2O.13

4 x NA: SODIUM ION(Non-functional Binders)

NA.7: 5 residues within 4Å: Chain A: T.202, S.204, T.207, S.209, M.427 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.204, A:T.207, A:S.209 NA.8: 3 residues within 4Å: Chain A: P.401, S.437, G.438 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.437 NA.9: 3 residues within 4Å: Chain A: D.157, G.158, A.160 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.157 Water bridges: A:A.160 NA.10: 2 residues within 4Å: Chain A: T.306, N.307 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.306 Water bridges: A:T.404

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.11: 4 residues within 4Å: Chain A: F.168, Y.206, K.342, Y.464 Ligand excluded by PLIP

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

DMS.12: 8 residues within 4Å: Chain A: V.156, D.157, R.391, D.419, G.420, F.421, N.422, W.424 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.422 DMS.13: 5 residues within 4Å: Chain A: V.219, A.301, N.302, D.303, S.316 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.302 DMS.14: 7 residues within 4Å: Chain A: N.188, W.221, Y.222, T.258, G.259, T.260, S.261 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.188

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

NAG.15: 3 residues within 4Å: Chain A: L.178, N.280, T.336 4 PLIP interactions: 4 interactions with chain A Water bridges: A:N.280, A:N.280, A:T.336, A:T.336

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lange, R.W. et al., Fragment-Based Design, Synthesis, and Characterization of Aminoisoindole-Derived Furin Inhibitors. Chemmedchem (2024)

Release Date

2023-10-04

Peptides

Furin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Furin

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