SMTL ID : 9bf7.1

SARS-CoV-2 Papain-like Protease (PLpro) C111S Untagged Crystal Structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.68 Å

Oligo State

monomer

Ligands

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 6 residues within 4Å: Chain A: W.106, N.109, N.110, S.111, G.271, H.272 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.109, A:S.111, A:S.111, A:S.111 Water bridges: A:Y.112 Salt bridges: A:H.272 PO4.4: 5 residues within 4Å: Chain A: H.73, N.128, P.129, Q.174, H.175 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.128 Water bridges: A:H.73, A:N.128, A:H.175 Salt bridges: A:H.73, A:H.175 PO4.5: 2 residues within 4Å: Chain A: H.47, S.49 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.49 Water bridges: A:S.49

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: G.163, D.164, Y.264, N.267, Y.268, Y.273, T.301 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.268, A:Y.273 Water bridges: A:V.165 GOL.3: 3 residues within 4Å: Chain A: S.85, N.88, H.89 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.85, A:N.88 GOL.7: 4 residues within 4Å: Chain A: H.89, K.92, W.93, D.108 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.89, A:D.108 GOL.8: 6 residues within 4Å: Chain A: H.17, Q.19, D.61, T.63, L.64 Ligands: ACT.6 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.17, A:Q.19, A:Q.19, A:D.61, A:T.63

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 5 residues within 4Å: Chain A: Q.19, Q.30, F.31, N.60 Ligands: GOL.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.19, A:N.60

1 x ZN: ZINC ION(Non-covalent)

ZN.9: 4 residues within 4Å: Chain A: C.189, C.192, C.224, C.226 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.189, A:C.192, A:C.224, A:C.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Al-Homoudi, A.I. et al., SARS-CoV-2 Papain-like Protease (PLpro) C111S Untagged Crystal Structure. To Be Published

Release Date

2025-10-01

Peptides

Papain-like protease nsp3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Papain-like protease nsp3

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