SMTL ID : 4rf1.1

Crystal structure of the Middle-East respiratory syndrome coronavirus papain-like protease in complex with ubiquitin (space group P63)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-oligomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.193, C.196, C.228, C.230 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.193, A:C.196, A:C.228, A:C.230

5 x PGO: S-1,2-PROPANEDIOL(Non-covalent)

PGO.2: 9 residues within 4Å: Chain A: V.92, W.95, K.96, M.97, R.104, G.145, D.146, S.147, T.148 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.104, A:G.145, A:S.147 Water bridges: A:M.97 PGO.3: 6 residues within 4Å: Chain A: A.179, E.180, L.181, G.205, L.206, K.207 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.181, A:L.206, A:K.207 PGO.4: 4 residues within 4Å: Chain A: F.36, G.39, Y.86, K.89 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.89 Water bridges: A:G.39, A:K.89 PGO.5: 2 residues within 4Å: Chain A: N.38, Y.57 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.57 Water bridges: A:N.38, A:G.39, A:Y.57 PGO.6: 2 residues within 4Å: Chain A: Y.226, R.236 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.226 Hydrogen bonds: A:R.236

1 x 3CN: 3-AMINOPROPANE(Covalent)

3CN.7: 6 residues within 4Å: Chain A: N.111, C.113, P.165, G.279, H.280 Chain B: G.75 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.279

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bailey-Elkin, B.A. et al., Crystal Structure of the Middle East Respiratory Syndrome Coronavirus (MERS-CoV) Papain-like Protease Bound to Ubiquitin Facilitates Targeted Disruption of Deubiquitinating Activity to Demonstrate Its Role in Innate Immune Suppression. J.Biol.Chem. (2014)

Release Date

2014-10-22

Peptides

ORF1ab protein: A
Ubiquitin-60S ribosomal protein L40: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ORF1ab protein

Ubiquitin-60S ribosomal protein L40

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