SMTL ID : 7sdr.2 (2 other biounits)

Papain-Like Protease of SARS CoV-2 in Complex with Jun9-72-2 Inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.72 Å

Oligo State

monomer

Ligands

1 x JW9: 4-({methyl[(1R)-1-(naphthalen-1-yl)ethyl]amino}methyl)phenol(Non-covalent)

JW9.1: 11 residues within 4Å: Chain A: G.166, D.167, E.170, M.211, P.250, P.251, Y.267, N.270, Y.271, Y.276, T.304 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:D.167, A:P.251, A:Y.267, A:Y.267, A:Y.271 Hydrogen bonds: A:Y.276 Salt bridges: A:D.167 pi-Stacking: A:Y.271, A:Y.271

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.192, C.195, C.227, C.229 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.192, A:C.195, A:C.227, A:C.229

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 2 residues within 4Å: Chain A: F.130, Q.136 Ligand excluded by PLIP

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: H.76, N.131, P.132, H.178 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.76, A:N.131, A:H.178

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 7 residues within 4Å: Chain A: T.77, D.79, F.82, R.85, A.156, Y.157, N.159 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.79, A:R.85, A:R.85, A:A.156, A:N.159 EDO.6: 10 residues within 4Å: Chain A: C.114, A.117, T.118, L.121, H.275, Y.276, K.277, I.288, D.289, G.290 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.275, A:G.290 EDO.7: 5 residues within 4Å: Chain A: S.215, Y.216, E.217, Y.254, Y.308 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.216, A:E.217 Water bridges: A:S.215

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Osipiuk, J. et al., Papain-Like Protease of SARS CoV-2 in Complex with Jun9-72-2 Inhibitor. To be Published

Release Date

2021-10-06

Peptides

Non-structural protein 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Non-structural protein 3

Related Entries With Identical Sequence