SMTL ID : 9brv.1 (1 other biounit)

SARS-CoV-2 Papain-like Protease (PLpro) with Fragment 5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

2 x 01: N-[2-(dimethylamino)ethyl]-N'-(3-methylphenyl)thiourea

01.1: 8 residues within 4Å: Chain A: G.168, D.169, M.213, P.252, P.253, Y.269, N.272, Y.278 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.252 Hydrogen bonds: A:D.169, A:Y.278, A:Y.278 Salt bridges: A:D.169 pi-Cation interactions: A:Y.269 01.3: 3 residues within 4Å: Chain A: R.70, F.74, T.80 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.70, A:F.74, A:T.80

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.194, C.197, C.229, C.231 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.194, A:C.197, A:C.229, A:C.231

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 7 residues within 4Å: Chain A: W.111, N.114, N.115, S.116, G.276, H.277, Y.278 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.114, A:S.116, A:S.116, A:G.276, A:Y.278 Salt bridges: A:H.277

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

CL.5: 4 residues within 4Å: Chain A: K.131, F.132, Q.138, Y.141 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taylor, A.J. et al., Fragment-Based Screen of SARS-CoV-2 Papain-like Protease (PL pro ). Acs Med.Chem.Lett. (2024)

Release Date

2024-07-31

Peptides

Papain-like protease nsp3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Papain-like protease nsp3

Related Entries With Identical Sequence