SMTL ID : 9js5.1 (2 other biounits)

Crystal structure of the ASFV-derived histone-like protein pA104R

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: R.94, L.96, K.97 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.94, A:R.94, A:K.97 EDO.5: 3 residues within 4Å: Chain B: R.94, L.96, K.97 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.94, B:R.94, B:K.97 EDO.9: 2 residues within 4Å: Chain C: N.25, K.26 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.26 Water bridges: C:N.25, C:A.27 EDO.13: 2 residues within 4Å: Chain D: N.25, K.26 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:K.26 Water bridges: D:N.25, D:A.27

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

SO4.2: 3 residues within 4Å: Chain A: K.57, T.59, R.94 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.57, A:R.94 SO4.3: 7 residues within 4Å: Chain A: N.25, A.27, L.28, R.31 Chain C: Q.70, H.72, P.79 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:N.25, A:L.28 Salt bridges: A:R.31, C:H.72 SO4.4: 3 residues within 4Å: Chain A: V.60, V.61, T.62 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.62 SO4.6: 3 residues within 4Å: Chain B: K.57, T.59, R.94 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.57, B:R.94 SO4.7: 7 residues within 4Å: Chain B: N.25, A.27, L.28, R.31 Chain D: Q.70, H.72, P.79 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:N.25, B:L.28 Salt bridges: B:R.31, D:H.72 SO4.8: 3 residues within 4Å: Chain B: V.60, V.61, T.62 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.62, B:T.62 SO4.10: 4 residues within 4Å: Chain C: V.63, K.85, H.88, A.90 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:K.85, C:H.88 SO4.11: 4 residues within 4Å: Chain B: R.69, Q.70 Chain C: K.66, K.85 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:Q.70, B:Q.70 Salt bridges: B:R.69, C:K.66, C:K.85 SO4.12: 3 residues within 4Å: Chain B: K.66 Chain C: R.69, Q.70 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:Q.70 Salt bridges: C:R.69, B:K.66, B:K.85 SO4.14: 4 residues within 4Å: Chain D: V.63, K.85, H.88, A.90 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:K.85, D:H.88 SO4.15: 4 residues within 4Å: Chain A: R.69, Q.70 Chain D: K.66, K.85 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:Q.70, A:Q.70 Salt bridges: A:R.69, D:K.66, D:K.85 SO4.16: 3 residues within 4Å: Chain A: K.66 Chain D: R.69, Q.70 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain D Salt bridges: A:K.66, A:K.85, D:R.69 Hydrogen bonds: D:Q.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Q.J. et al., Thonningianin A disrupts pA104R-DNA binding and inhibits African swine fever virus replication. Emerg Microbes Infect (2025)

Release Date

2025-04-30

Peptides

Viral histone-like protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
B

D
B

Viral histone-like protein

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