SMTL ID : 8a4x.3 (3 other biounits)

Crystal structure of human Cathepsin L with covalently bound Calpain inhibitor III

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x L3F: (phenylmethyl) N-[(2S)-3-methyl-1-oxidanylidene-1-[[(2S)-1-oxidanyl-3-phenyl-propan-2-yl]amino]butan-2-yl]carbamate(Covalent)

L3F.1: 22 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 Ligands: P6G.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.26, A:E.63, A:L.69, A:Y.72, A:A.135 Hydrogen bonds: A:Q.19, A:G.23, A:C.25, A:G.68, A:G.68, A:D.162

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

PEG.2: 6 residues within 4Å: Chain A: Y.12, F.39, R.40, K.41, T.42, G.43 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.42 PEG.3: 6 residues within 4Å: Chain A: S.88, Y.89, P.90, K.99, N.101, Y.104 No protein-ligand interaction detected (PLIP)

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.4: 13 residues within 4Å: Chain A: Q.19, G.20, Q.21, C.22, G.23, A.138, G.139, H.140, L.144, D.162, H.163, W.189 Ligands: L3F.1 No protein-ligand interaction detected (PLIP)

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
C

Cathepsin L

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