SMTL ID : 4rf0.1

Crystal structure of the Middle-East respiratory syndrome coronavirus papain-like protease in complex with ubiquitin (space group P6522)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 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

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

SO4.2: 2 residues within 4Å: Chain A: G.279, H.280 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.279 Salt bridges: A:H.280 SO4.3: 4 residues within 4Å: Chain A: F.271, Q.272, G.273, K.308 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.271, A:G.273 Salt bridges: A:K.308 SO4.4: 6 residues within 4Å: Chain A: E.180, L.181, Q.204, G.205, L.206, K.207 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.181, A:L.206 Salt bridges: A:K.207 SO4.5: 5 residues within 4Å: Chain A: W.189, E.191, L.203, R.236 Chain B: A.46 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.189 Salt bridges: A:R.236 SO4.6: 6 residues within 4Å: Chain A: H.173, L.176, A.177, K.207, C.210 Chain B: K.48 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:H.173 Water bridges: B:K.48 Salt bridges: B:K.48 SO4.7: 4 residues within 4Å: Chain A: V.103, R.104, D.123, R.285 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.104 Salt bridges: A:R.285 SO4.8: 4 residues within 4Å: Chain A: F.36, G.39, Y.86, K.89 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.89 SO4.10: 5 residues within 4Å: Chain A: Y.226, R.236 Chain B: A.46, T.66, H.68 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:A.46 Salt bridges: B:H.68, A:R.236 SO4.11: 3 residues within 4Å: Chain B: D.39, R.72, R.74 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.39 Salt bridges: B:R.72, B:R.74

1 x 3CN: 3-AMINOPROPANE(Covalent)

3CN.9: 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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