SMTL ID : 8ahv.1 (3 other biounits)

Crystal structure of human cathepsin L in complex with calpain inhibitor XII

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 7 residues within 4Å: Chain A: M.38, K.41, T.42, N.108, D.109, A.110, V.220 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.41, A:N.108 PGE.2: 8 residues within 4Å: Chain A: D.84, S.88, Y.89, P.90, K.99, Y.100, N.101, Y.104 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.88

1 x M6L: (phenylmethyl) ~{N}-[(2~{S})-4-methyl-1-oxidanylidene-1-[[(2~{S},3~{S})-2-oxidanyl-1-oxidanylidene-1-(pyridin-2-ylmethylamino)hexan-3-yl]amino]pentan-2-yl]carbamate(Covalent)

M6L.3: 25 residues within 4Å: Chain A: Q.19, G.20, Q.21, 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, W.189 Ligands: DMS.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.69, A:A.135 Hydrogen bonds: A:Q.19, A:C.25, A:G.68, A:G.68, A:D.162, A:D.162, A:H.163

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

DMS.4: 6 residues within 4Å: Chain A: A.138, G.139, D.162, H.163, W.189 Ligands: M6L.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.163 Salt bridges: A:D.162

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

2023-08-02

Peptides

Cathepsin L: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cathepsin L

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