SMTL ID : 8a4w.4 (3 other biounits)

Crystal structure of human cathepsin L with covalently bound Cathepsin L inhibitor IV

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x L2F: N-(1-naphthylsulfonyl)-(L)-isoleucyl-(L)-tryptophanol(Covalent)

L2F.1: 21 residues within 4Å: Chain A: Q.19, C.22, G.23, S.24, C.25, W.26, G.61, N.62, E.63, C.65, N.66, G.67, G.68, L.69, M.70, Y.72, A.135, M.161, D.162, H.163, G.164 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:E.63, A:A.135 Hydrogen bonds: A:Q.19, A:G.23, A:C.25, A:N.66, A:G.68, A:G.68, A:D.162

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

PEG.2: 11 residues within 4Å: Chain A: A.138, G.139, H.140, E.141, F.143, L.144, D.162, H.163, W.189 Ligands: PEG.3, DMS.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.139 Water bridges: A:W.189 PEG.3: 8 residues within 4Å: Chain A: Q.19, G.20, Q.21, C.22, G.23, L.144, W.189 Ligands: PEG.2 1 PLIP interactions: 1 interactions with chain A Water bridges: A:W.189

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

DMS.4: 3 residues within 4Å: Chain A: P.59, Q.60, D.79 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.60 Salt bridges: A:D.79 DMS.5: 4 residues within 4Å: Chain A: E.141, L.144, F.145 Ligands: PEG.2 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Falke, S. et al., Structural Elucidation and Antiviral Activity of Covalent Cathepsin L Inhibitors. J.Med.Chem. (2024)

Release Date

2023-07-05

Peptides

Cathepsin L: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Cathepsin L

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