SMTL ID : 9f7p.1

SARS-CoV-2 papain-like protease (PLpro) C112S mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.190, T.192, C.193, C.225, C.227 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.190, A:C.193, A:C.225, A:C.227

2 x MLI: MALONATE ION(Non-functional Binders)

MLI.2: 8 residues within 4Å: Chain A: W.107, N.110, N.111, S.112, L.163, G.272, H.273, Y.274 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:N.110 Hydrogen bonds: A:W.107, A:S.112, A:S.112 Water bridges: A:N.110 Salt bridges: A:H.273, A:H.273 MLI.4: 7 residues within 4Å: Chain A: S.213, Y.214, E.215, Y.252, T.258, F.259, Y.306 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.213, A:Y.214, A:E.215, A:T.258 Water bridges: A:S.213, A:E.215, A:Y.252, A:Y.252, A:E.253, A:T.258, A:T.258

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 9 residues within 4Å: Chain A: L.163, G.164, D.165, P.249, Y.265, Y.269, Q.270, Y.274, T.302 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.265, A:Q.270, A:Y.274, A:T.302 Water bridges: A:G.164

2 x NA: SODIUM ION(Non-functional Binders)

NA.5: 6 residues within 4Å: Chain A: L.121, Q.122, I.124, E.125, L.126, Y.137 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.124, A:Y.137, A:Y.137 Water bridges: A:L.126 NA.6: 5 residues within 4Å: Chain A: N.129, Q.175, A.177, N.178, L.179 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.129, A:A.177 Water bridges: A:L.179

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

CL.7: 4 residues within 4Å: Chain A: K.127, F.128, Q.134, Y.137 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain A: H.74, N.129, P.130, H.176 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Camara-Artigas, A., SARS-CoV-2 papain-like protease (PLpro) C112S mutant. To Be Published

Release Date

2025-05-14

Peptides

Replicase polyprotein 1ab: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Replicase polyprotein 1ab

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