› 8dji

X-ray diffraction
1.97Å resolution

Ternary complex of SUMO1 with the SIM of PML and zinc

Released:
DOI: 10.2210/pdb8dji/pdb
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PDB entry 8dji coloured by chain, front view.
PDB entry 8dji coloured by chain, side view.
PDB entry 8dji coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Zinc controls PML nuclear body formation through regulation of a paralog specific auto-inhibition in SUMO1.
Lussier-Price M, Wahba HM, Mascle XH, Cappadocia L, Bourdeau V, Gagnon C, Igelmann S, Sakaguchi K, Ferbeyre G, Omichinski JG
OpenAccess logo Nucleic Acids Res (2022)
PMID: 35871297

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-151545 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Small ubiquitin-related modifier 1 Chain: A
Molecule details ›
Chain: A
Length: 97 amino acids
Theoretical weight: 11.04 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P63165 (Residues: 2-97; Coverage: 95%)
  • Best match: P63165-2 (Residues: 4-72)
Gene names: OK/SW-cl.43, SMT3C, SMT3H3, SUMO1, UBL1
Sequence domains: Ubiquitin-2 like Rad60 SUMO-like
Protein PML Chain: B
Molecule details ›
Chain: B
Length: 29 amino acids
Theoretical weight: 2.98 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P29590 (Residues: 547-574; Coverage: 3%)
  • Best match: P29590-8 (Residues: 547-570)
Gene names: MYL, PML, PP8675, RNF71, TRIM19

Ligands and Environments

1 bound ligand:
Ligand ZN 3 x ZN
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: CHESS BEAMLINE F1
Spacegroup: P212121
Unit cell:
a: 36.995Å b: 47.156Å c: 63.777Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.234 0.231 0.258
Expression system: Escherichia coli

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Citations

1 review citation

Regulating the p53 Tumor Suppressor Network at PML Biomolecular Condensates.
Liebl et al. (2022)

1 mention without citation

Zinc controls PML nuclear body formation through regulation of a paralog specific auto-inhibition in SUMO1.
Lussier-Price et al. (2022)

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