› 5wts

X-ray diffraction
3Å resolution

Green fluorescent protein linked MTide-02 inhibitor in complex with mdm2

Released:
DOI: 10.2210/pdb5wts/pdb
PDB entry 5wts coloured by chain, front view.
PDB entry 5wts coloured by chain, side view.
PDB entry 5wts coloured by chain, top view.
Source organisms:
Entry authors: Wongsantichon J, Robinson RC, Ghadessy FJ

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:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-211886 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Green fluorescent protein linked MTide-02 Chain: A
Molecule details ›
Chain: A
Length: 358 amino acids
Theoretical weight: 40.42 KDa
Source organism: Aequorea victoria
Expression system: Escherichia coli
E3 ubiquitin-protein ligase Mdm2 Chain: B
Molecule details ›
Chain: B
Length: 122 amino acids
Theoretical weight: 13.75 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q00987 (Residues: 6-125; Coverage: 24%)
Gene name: MDM2
Sequence domains: SWIB/MDM2 domain
Structure domains: SWIB/MDM2 domain

Ligands and Environments

3 bound ligands:
Ligand GOL 1 x GOL
Ligand PO4 2 x PO4
Ligand PG4 1 x PG4
1 modified residue:
Ligand CRO 1 x CRO

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL13B1
Spacegroup: I222
Unit cell:
a: 51.766Å b: 98.422Å c: 218.988Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.206 0.204 0.244
Expression system: Escherichia coli

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