SMTL ID : 8t5q.2 (1 other biounit)

SARS-CoV-2 ORF3a peptide in complex with TRAF2 TRAF domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-trimer

Ligands

1 x PRO- ILE- GLN- ALA- SER: ORF3a protein(Non-covalent)

PRO-ILE-GLN-ALA-SER.1: 13 residues within 4Å: Chain A: D.86, G.87, F.97, F.134, R.135, S.140, S.141, S.142, I.152, A.153, S.154, G.155, P.157 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.134, A:I.152, A:P.157 Hydrogen bonds: A:D.86, A:G.87, A:S.142, A:S.142, A:A.153, A:G.155

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 5 residues within 4Å: Chain A: I.42, L.122, H.129, K.180, I.182 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.180 PG4.5: 5 residues within 4Å: Chain C: V.40, I.42, M.120, L.122, K.180 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.180

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

PEG.3: 6 residues within 4Å: Chain B: I.42, L.122, K.180 Chain C: Y.73, L.109 Ligands: PEG.4 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:H.129, B:K.180, C:Y.73 Water bridges: C:Y.73 PEG.4: 4 residues within 4Å: Chain B: V.40, K.180, I.182 Ligands: PEG.3 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B Water bridges: C:Y.73, B:K.180 Hydrogen bonds: B:K.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Busscher, B.M. et al., SARS-CoV-2 ORF3a-Mediated NF-kappa B Activation Is Not Dependent on TRAF-Binding Sequence. Viruses (2023)

Release Date

2023-11-29

Peptides

TNF receptor-associated factor 2: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

TNF receptor-associated factor 2

Related Entries With Identical Sequence