SMTL ID : 4x6h.1

Development of N-(Functionalized benzoyl)-homocycloleucyl-glycinonitriles as Potent Cathepsin K Inhibitors.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

monomer

Ligands

1 x 3XT: 4-amino-3-fluoro-N-(1-{[(2Z)-2-iminoethyl]carbamoyl}cyclohexyl)benzamide(Covalent)

3XT.1: 15 residues within 4Å: Chain A: Q.19, G.23, S.24, C.25, W.26, D.61, G.64, G.65, G.66, Y.67, A.134, L.160, N.161, H.162 Ligands: I37.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:A.134 Hydrogen bonds: A:Q.19, A:C.25, A:D.61, A:G.66, A:G.66, A:N.161, A:H.162 pi-Stacking: A:Y.67

1 x I37: 4-amino-N-{1-[(cyanomethyl)carbamoyl]cyclohexyl}-3-fluorobenzamide(Non-covalent)

I37.2: 13 residues within 4Å: Chain A: G.23, C.25, W.26, D.61, G.64, G.65, G.66, Y.67, A.134, L.160, N.161, H.162 Ligands: 3XT.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.134 Hydrogen bonds: A:D.61, A:G.66, A:G.66, A:N.161 Water bridges: A:G.23 pi-Stacking: A:Y.67

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

SO4.3: 1 residues within 4Å: Chain A: N.187 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.187 SO4.4: 1 residues within 4Å: Chain A: D.158 No protein-ligand interaction detected (PLIP) SO4.5: 5 residues within 4Å: Chain A: K.119, K.122, K.176, R.198, N.199 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.199 Water bridges: A:R.198, A:R.198, A:R.198 Salt bridges: A:K.119, A:K.122, A:K.176, A:R.198 SO4.6: 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 SO4.7: 3 residues within 4Å: Chain A: K.147, N.190, K.191 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.190 Water bridges: A:K.147 Salt bridges: A:K.147, A:K.191 SO4.8: 5 residues within 4Å: Chain A: Q.76, R.108, G.109, Y.110, K.214 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.76, A:Y.110 Salt bridges: A:K.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Borisek, J. et al., Development of N-(Functionalized benzoyl)-homocycloleucyl-glycinonitriles as Potent Cathepsin K Inhibitors. J.Med.Chem. (2015)

Release Date

2015-09-23

Peptides

Cathepsin K: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cathepsin K

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