SMTL ID : 6hza.1

X-ray structure of furin in complex with the cyclic peptide c[glutaryl-Arg-Arg-Lys]-Arg-4-Amba

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x ARG- ARG- LYS- ARG- 00S: ARG-ARG-LYS-ARG-00S(Non-covalent)

ARG-ARG-LYS-ARG-00S.1: 28 residues within 4Å: Chain A: D.47, D.84, N.85, H.87, L.120, V.124, T.125, D.126, E.129, S.146, W.147, G.148, P.149, E.150, D.151, D.157, G.158, W.184, A.185, S.186, G.187, N.188, D.199, Y.201, T.202, T.260, S.261 Ligands: PTD.12 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:L.120, A:V.124, A:A.185, A:T.260 Hydrogen bonds: A:N.85, A:V.124, A:S.146, A:G.148, A:G.148, A:P.149, A:E.150, A:A.185, A:Y.201 Water bridges: A:N.85, A:L.120, A:E.129, A:E.150, A:E.150, A:D.151, A:G.158, A:Y.201 Salt bridges: A:D.47, A:E.129, A:E.129, A:D.157, A:D.157

3 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: D.67, D.72, D.74 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.67, A:D.72, H2O.6, H2O.6, H2O.14 CA.3: 6 residues within 4Å: Chain A: D.8, D.55, V.98, N.101, V.103, G.105 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.4: 3 residues within 4Å: Chain A: D.151, D.194, E.224 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.194, A:E.224, H2O.5, H2O.6, H2O.8

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

NA.5: 4 residues within 4Å: Chain A: T.202, S.204, T.207, S.209 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.202, A:T.207, A:S.209 NA.6: 2 residues within 4Å: Chain A: S.172, G.177 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.177 NA.7: 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

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

CL.8: 4 residues within 4Å: Chain A: F.168, Y.206, K.342, Y.464 Ligand excluded by PLIP

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.9: 5 residues within 4Å: Chain A: E.5, F.11, P.12, Q.14, S.18 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.5, A:F.11 PO4.10: 2 residues within 4Å: Chain A: Q.239, N.240 No protein-ligand interaction detected (PLIP)

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

DMS.11: 6 residues within 4Å: Chain A: V.156, R.391, D.419, G.420, F.421, N.422 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.422

1 x PTD: PENTANEDIAL(Non-covalent)

PTD.12: 4 residues within 4Å: Chain A: E.150 Ligands: ARG-ARG-LYS-ARG-00S.1, ARG-ARG-LYS-ARG-00S.1, ARG-ARG-LYS-ARG-00S.1 2 PLIP interactions: 2 interactions with chain A Water bridges: A:E.150, A:E.150

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Van Lam van, T. et al., Design, Synthesis, and Characterization of Macrocyclic Inhibitors of the Proprotein Convertase Furin. Chemmedchem (2019)

Release Date

2019-02-06

Peptides

Furin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Furin

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