SMTL ID : 8hei.1

Crystal structure of CTSB in complex with E64d

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x E6D: ethyl (3S)-3-hydroxy-4-({(2S)-4-methyl-1-[(3-methylbutyl)amino]-1-oxopentan-2-yl}amino)-4-oxobutanoate(Covalent)

E6D.1: 16 residues within 4Å: Chain A: Q.26, G.30, S.31, C.32, W.33, G.76, G.77, P.79, E.125, A.176, F.177, S.178, G.201, H.202, W.224, E.248 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.26, A:C.32, A:W.33, A:G.77, A:E.125, A:G.201 Salt bridges: A:H.202

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: P.15, Q.16, P.18 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.15 Water bridges: A:Q.16, A:Q.16 GOL.3: 2 residues within 4Å: Chain A: P.15, Q.16 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.16 GOL.4: 6 residues within 4Å: Chain A: R.11, L.219, D.230, N.231, F.233, K.235 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.11, A:R.11, A:D.230, A:N.231, A:K.235, A:K.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, H. et al., Structure-based discovery of dual pathway inhibitors for SARS-CoV-2 entry. Nat Commun (2023)

Release Date

2023-12-13

Peptides

Cathepsin B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cathepsin B

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