SMTL ID : 7qbn.1

Structure of cathepsin K in complex with the azadipeptide nitrile inhibitor Gu1303

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x 9ZG: (phenylmethyl) ~{N}-[(2~{S})-1-[[aminomethyl(methyl)amino]-methyl-amino]-1-oxidanylidene-3-phenyl-propan-2-yl]carbamate(Covalent)

9ZG.1: 17 residues within 4Å: Chain A: Q.21, G.25, S.26, C.27, W.28, E.61, N.62, D.63, G.67, G.68, Y.69, A.136, L.162, N.163, H.164, A.165, L.211 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.69, A:A.136, A:L.162, A:A.165, A:L.211 Hydrogen bonds: A:Q.21, A:C.27, A:G.68, A:G.68 Water bridges: A:C.24 pi-Stacking: A:Y.69

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

CL.2: 3 residues within 4Å: Chain A: Y.69, M.70, T.71 Ligand excluded by PLIP

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 3 residues within 4Å: Chain A: N.201, K.202, N.203 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.203 Water bridges: A:N.204, A:N.204

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Benysek, J. et al., Highly potent inhibitors of cathepsin K with a differently positioned cyanohydrazide warhead: structural analysis of binding mode to mature and zymogen-like enzymes. J Enzyme Inhib Med Chem (2022)

Release Date

2022-01-26

Peptides

Cathepsin K: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cathepsin K

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