SMTL ID : 3n3g.1 (1 other biounit)

4-(3-Trifluoromethylphenyl)-pyrimidine-2-carbonitrile as cathepsin S inhibitors: N3, not N1 is critically important

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.1: 2 residues within 4Å: Chain A: Y.18 Ligands: 93N.4 3 PLIP interactions: 3 interactions with chain A Water bridges: A:W.186, A:N.189, A:N.189

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

DMS.2: 4 residues within 4Å: Chain A: S.89, Y.90, Q.100, Y.105 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:Y.90

1 x 935: (E)-1-(6-{4-[3-(4-METHYLPIPERAZIN-1-YL)PROPOXY]-3-(TRIFLUOROMETHYL)PHENYL}PYRIDIN-2-YL)METHANIMINE(Non-covalent)

935.3: 14 residues within 4Å: Chain A: Q.19, G.23, A.24, C.25, N.67, G.68, G.69, M.71, G.137, V.162, N.163, H.164, G.165, F.211 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.162, A:F.211 Hydrogen bonds: A:Q.19, A:C.25 Water bridges: A:H.164, A:H.164, A:H.164

1 x 93N: 6-{4-[3-(4-METHYLPIPERAZIN-1-YL)PROPOXY]-3-(TRIFLUOROMETHYL)PHENYL}PYRIDINE-2-CARBONITRILE(Non-covalent)

93N.4: 11 residues within 4Å: Chain A: Y.18, Q.19, G.20, F.146, L.147, R.149, S.185, W.186, N.189, F.190 Ligands: PEG.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.146, A:F.146, A:N.189, A:F.190 Hydrogen bonds: A:Q.19, A:G.20 Water bridges: A:G.191 pi-Stacking: A:W.186, A:W.186

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cai, J. et al., 4-(3-Trifluoromethylphenyl)-pyrimidine-2-carbonitrile as cathepsin S inhibitors: N3, not N1 is critically important. Bioorg.Med.Chem.Lett. (2010)

Release Date

2010-07-14

Peptides

Cathepsin S: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cathepsin S

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