SMTL ID : 8q3x.1

Structure of Nucleosome Core with a Bound Metallopeptide Conjugate (Kaposi Sarcoma Associated Herpesvirus LANA Peptide-Au[I] Compound)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-2-2-1-mer

Ligands

1 x AU: GOLD ION(Non-covalent)

AU.1: 2 residues within 4Å: Chain A: H.76 Ligands: XIS.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.76

1 x XIS: 4-diphenylphosphanylbenzoic acid(Non-covalent)

XIS.2: 8 residues within 4Å: Chain A: L.72, I.75 Chain E: K.85, Q.88, R.92, R.97, A.98 Ligands: AU.1 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain E Hydrophobic interactions: A:L.72, A:I.75, E:K.85, E:K.85 Salt bridges: E:R.92, E:R.97

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain E: D.40 Chain F: L.7 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:D.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Batchelor, L.K. et al., Viral peptide conjugates for metal-warhead delivery to chromatin. Rsc Adv (2024)

Release Date

2024-03-27

Peptides

Histone H3.1: AE
Histone H4: BF
Histone H2A type 1-B/E: CG
Histone H2B type 1-K: DH
LANA peptide: K

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

E
EEE

B
BBB

F
FFF

C
CCC

G
GGG

D
DDD

H
HHH

K
MMM

Histone H3.1

Histone H4

Histone H2A type 1-B/E

Histone H2B type 1-K

LANA peptide

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