SMTL ID : 2op3.3 (3 other biounits)

The structure of cathepsin S with a novel 2-arylphenoxyacetaldehyde inhibitor derived by the Substrate Activity Screening (SAS) method

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 7 residues within 4Å: Chain A: K.85, S.106, R.109 Chain C: K.85, S.106, R.109 Ligands: SO4.5 7 PLIP interactions: 3 interactions with chain C, 4 interactions with chain A Hydrogen bonds: C:S.106, A:S.106 Water bridges: C:R.109, A:R.109, A:R.109 Salt bridges: C:R.109, A:R.109 SO4.5: 7 residues within 4Å: Chain A: K.85, S.106, R.109 Chain C: K.85, S.106, R.109 Ligands: SO4.1 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:S.106, A:S.106 Water bridges: C:R.109, C:R.109, A:R.109 Salt bridges: C:R.109, A:R.109

4 x TF5: 2-[(2',3',4'-TRIFLUOROBIPHENYL-2-YL)OXY]ETHANOL(Covalent)

TF5.2: 15 residues within 4Å: Chain A: Q.22, G.26, A.27, C.28, W.29, N.70, G.71, G.72, M.74, G.140, V.165, N.166, H.167, G.168 Ligands: PEU.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.22, A:C.28, A:H.167 TF5.4: 15 residues within 4Å: Chain B: Q.22, G.26, A.27, C.28, W.29, N.70, G.71, G.72, M.74, G.140, V.165, N.166, H.167, G.168 Ligands: PEU.3 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.22, B:C.28 TF5.6: 15 residues within 4Å: Chain C: Q.22, G.26, A.27, C.28, W.29, N.70, G.71, G.72, M.74, G.140, V.165, N.166, H.167, G.168 Ligands: PEU.7 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.22, C:C.28 TF5.8: 15 residues within 4Å: Chain D: Q.22, G.26, A.27, C.28, W.29, N.70, G.71, G.72, M.74, G.140, V.165, N.166, H.167, G.168 Ligands: PEU.7 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Q.22, D:C.28, D:H.167

2 x PEU: 2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL(Non-covalent)

PEU.3: 11 residues within 4Å: Chain A: G.65, G.72, F.73, V.165, F.214 Chain B: G.72, F.73, V.165, F.214 Ligands: TF5.2, TF5.4 No protein-ligand interaction detected (PLIP) PEU.7: 11 residues within 4Å: Chain C: G.65, G.72, F.73, V.165, F.214 Chain D: G.72, F.73, V.165, F.214 Ligands: TF5.6, TF5.8 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Inagaki, H. et al., Characterization and optimization of selective, nonpeptidic inhibitors of cathepsin S with an unprecedented binding mode. J.Med.Chem. (2007)

Release Date

2007-05-22

Peptides

Cathepsin S: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Cathepsin S

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