SMTL ID : 8t5q.1 (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

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

PRO-ILE-GLN-ALA-SER.1: 13 residues within 4Å: Chain A: Y.82, D.86, F.97, F.134, R.135, S.140, S.141, S.142, I.152, A.153, S.154, G.155, P.157 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.97, A:F.134, A:I.152, A:P.157 Hydrogen bonds: A:D.86, A:R.90, A:S.142, A:S.142, A:A.153, A:G.155, A:G.155 Water bridges: A:S.141 PRO-ILE-GLN-ALA-SER.2: 13 residues within 4Å: Chain B: Y.82, D.86, F.97, F.134, R.135, S.140, S.141, S.142, I.152, A.153, S.154, G.155, P.157 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.97, B:F.134, B:I.152, B:P.157 Hydrogen bonds: B:D.86, B:S.142, B:S.142, B:A.153, B:G.155, B:G.155 Water bridges: B:S.154

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

PG4.3: 5 residues within 4Å: Chain A: V.40, I.42, M.120, L.122, K.180 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.180 PG4.4: 5 residues within 4Å: Chain B: V.40, I.42, M.120, K.180, I.182 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.180

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

PEG.5: 5 residues within 4Å: Chain C: V.40, I.42, K.180, I.182 Ligands: PEG.6 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.180 PEG.6: 5 residues within 4Å: Chain C: I.42, M.120, L.122, K.180 Ligands: PEG.5 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C: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
A

B
B

C
C

TNF receptor-associated factor 2

Related Entries With Identical Sequence