› 7ahy

X-ray diffraction
2.53Å resolution

Crystal structure of Western clawed frog MDM2 RING domain homodimer

Released:
DOI: 10.2210/pdb7ahy/pdb
PDB entry 7ahy coloured by chain, front view.
PDB entry 7ahy coloured by chain, side view.
PDB entry 7ahy coloured by chain, top view.
Source organism: Xenopus tropicalis
Primary publication:
Identification of a Catalytic Active but Non-Aggregating MDM2 RING Domain Variant.
Magnussen HM, Huang DT
OpenAccess logo J Mol Biol 433 166807 (2021)
PMID: 33450248

Function and Biology Details

Reaction catalysed: 
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-180109 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
E3 ubiquitin-protein ligase Mdm2 Chains: AAA, BBB
Molecule details ›
Chains: AAA, BBB
Length: 71 amino acids
Theoretical weight: 7.91 KDa
Source organism: Xenopus tropicalis
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6P3Q9 (Residues: 414-482; Coverage: 14%)
Gene names: Xdm2, hdm2, mdm2, xdm-2
Sequence domains: Zinc finger, C3HC4 type (RING finger)

Ligands and Environments

1 bound ligand:
Ligand ZN 4 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P21
Unit cell:
a: 42.559Å b: 23.76Å c: 55.744Å
α: 90° β: 101.224° γ: 90°
R-values:
R R work R free
0.22 0.217 0.279
Expression system: Escherichia coli

Quick links

Citations

1 citations in other articles

Bivalent binding of p14ARF to MDM2 RING and acidic domains inhibits E3 ligase function.
Kowalczyk et al. (2022)

1 mention without citation

Identification of a Catalytic Active but Non-Aggregating MDM2 RING Domain Variant.
Magnussen et al. (2021)