SMTL ID : 9uj2.1

14-3-3 zeta chimera with the S202R peptide of SARS-CoV-2 N (residues 200-213)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

16 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 4 residues within 4Å: Chain A: K.196, F.199, R.225, L.228 Ligand excluded by PLIP EDO.2: 5 residues within 4Å: Chain A: K.30, E.34, D.99, S.102, L.103 Ligand excluded by PLIP EDO.3: 5 residues within 4Å: Chain A: A.112, S.113, Q.114, A.115, K.118 Ligand excluded by PLIP EDO.4: 5 residues within 4Å: Chain A: G.56, R.59, S.60, R.63, R.238 Ligand excluded by PLIP EDO.5: 7 residues within 4Å: Chain A: Q.164, T.166, H.167, T.208, L.209, S.210, S.213 Ligand excluded by PLIP EDO.6: 3 residues within 4Å: Chain A: E.134, E.183, I.184 Ligand excluded by PLIP EDO.8: 3 residues within 4Å: Chain A: E.38, L.39, S.40 Ligand excluded by PLIP EDO.9: 5 residues within 4Å: Chain A: K.12 Chain B: M.81, E.84, Y.85, K.88 Ligand excluded by PLIP EDO.10: 4 residues within 4Å: Chain B: Q.153, F.177, Y.181, L.194 Ligand excluded by PLIP EDO.11: 1 residues within 4Å: Chain B: Q.222 Ligand excluded by PLIP EDO.12: 5 residues within 4Å: Chain B: W.62, E.134, V.135, A.136, A.137 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain B: R.58, E.92, I.96 Ligand excluded by PLIP EDO.15: 4 residues within 4Å: Chain B: K.196, F.199, R.225, L.228 Ligand excluded by PLIP EDO.18: 4 residues within 4Å: Chain B: E.183, S.237, R.238, R.239 Ligand excluded by PLIP EDO.19: 6 residues within 4Å: Chain B: G.56, R.59, S.60, R.63, R.238 Ligands: PEG.16 Ligand excluded by PLIP EDO.22: 4 residues within 4Å: Chain B: E.20, R.21, Y.22, D.23 Ligand excluded by PLIP

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

PEG.7: 5 residues within 4Å: Chain A: K.52, N.53, P.243, A.244, R.245 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.52, A:A.244, A:R.245 Water bridges: A:N.53, A:R.245 PEG.14: 3 residues within 4Å: Chain B: E.154, E.157, I.158 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.157 Water bridges: B:E.154, B:E.157 PEG.16: 4 residues within 4Å: Chain B: R.238, R.239, G.240 Ligands: EDO.19 1 PLIP interactions: 1 interactions with chain B Water bridges: B:R.238 PEG.17: 4 residues within 4Å: Chain B: N.98, Y.129, G.143, I.144 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.98, B:G.143 Water bridges: B:D.140, B:Q.147 PEG.20: 8 residues within 4Å: Chain B: N.41, R.44, N.45, F.120, I.169, R.245, M.246, A.247 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.44, B:N.45, B:M.246, B:A.247 Water bridges: B:N.41, B:N.41 PEG.21: 2 residues within 4Å: Chain B: G.235, G.236 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.236 Water bridges: B:G.235, B:S.237 PEG.23: 4 residues within 4Å: Chain B: K.52, P.243, A.244, R.245 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.52, B:A.244, B:R.245

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Perfilova, K.V. et al., High-resolution structure reveals enhanced 14-3-3 binding by a mutant SARS-CoV-2 nucleoprotein variant with improved replicative fitness. Biochem.Biophys.Res.Commun. (2025)

Release Date

2025-05-21

Peptides

14-3-3 protein zeta/delta,Peptide from Nucleoprotein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

14-3-3 protein zeta/delta,Peptide from Nucleoprotein