SMTL ID : 8he9.1

Crystal structure of CTSB in complex with K777

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x 0IW: Nalpha-[(4-methylpiperazin-1-yl)carbonyl]-N-[(3S)-1-phenyl-5-(phenylsulfonyl)pentan-3-yl]-L-phenylalaninamide(Covalent)

0IW.1: 17 residues within 4Å: Chain A: Q.24, G.28, C.30, W.31, D.70, C.72, N.73, G.74, G.75, Y.76, P.77, A.174, V.177, M.197, G.199, H.200, W.222 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.76, A:Y.76, A:A.174, A:V.177, A:M.197 Hydrogen bonds: A:W.31, A:G.75, A:G.75, A:G.199

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 2 residues within 4Å: Chain A: P.13, Q.14 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.14 GOL.3: 10 residues within 4Å: Chain A: E.20, R.22, V.36, S.40, E.54, V.55, S.56, A.57, G.92, G.93 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.22, A:V.36, A:S.40, A:E.54, A:V.55, A:A.57 Water bridges: A:G.92, A:G.93

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

DMS.4: 5 residues within 4Å: Chain A: R.9, L.217, D.228, F.231, K.233 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.9, A:R.9 Salt bridges: A:D.228

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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