SMTL ID : 3kwz.1

Cathepsin K in complex with a non-selective 2-cyano-pyrimidine inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

monomer

Ligands

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain A: Q.19, G.23, H.162, W.184 Ligands: KWZ.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.19, A:W.184 Salt bridges: A:H.162 SO4.2: 4 residues within 4Å: Chain A: N.18, G.185, E.186, N.187 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.18, A:E.186, A:N.187 SO4.3: 3 residues within 4Å: Chain A: L.139, T.140, S.141 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.140, A:S.141 SO4.4: 4 residues within 4Å: Chain A: F.144, Y.145, S.146, K.147 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.146, A:K.147 SO4.5: 3 residues within 4Å: Chain A: C.63, Q.92, E.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.93 Water bridges: A:C.63 SO4.6: 3 residues within 4Å: Chain A: N.117, K.119, R.123 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.117 Salt bridges: A:K.119, A:R.123

1 x KWZ: 4-(3-piperidin-1-ylpropyl)-6-[3-(trifluoromethyl)phenyl]pyrimidine-2-carbonitrile(Covalent)

KWZ.7: 16 residues within 4Å: Chain A: Q.19, G.23, S.24, C.25, G.64, G.65, G.66, Y.67, M.68, A.134, L.160, N.161, H.162, A.163, L.209 Ligands: SO4.1 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.67 Hydrogen bonds: A:Q.19, A:C.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rankovic, Z. et al., Design and optimization of a series of novel 2-cyano-pyrimidines as cathepsin K inhibitors. Bioorg.Med.Chem.Lett. (2010)

Release Date

2010-03-02

Peptides

Cathepsin K: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cathepsin K

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