› 4awj

X-ray diffraction
2.5Å resolution

pVHL:EloB:EloC complex, in complex with capped Hydroxyproline

Released:
DOI: 10.2210/pdb4awj/pdb
PDB entry 4awj coloured by chain, front view.
PDB entry 4awj coloured by chain, side view.
PDB entry 4awj coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Dissecting fragment-based lead discovery at the von Hippel-Lindau protein:hypoxia inducible factor 1α protein-protein interface.
Van Molle I, Thomann A, Buckley DL, So EC, Lang S, Crews CM, Ciulli A
Chem Biol 19 1300-12 (2012)
PMID: 23102223

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-154086 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Elongin-B Chains: A, D, G, J
Molecule details ›
Chains: A, D, G, J
Length: 104 amino acids
Theoretical weight: 11.96 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q15370 (Residues: 1-104; Coverage: 88%)
Gene names: ELOB, TCEB2
Sequence domains: Ubiquitin family
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Elongin-C Chains: B, E, H, K
Molecule details ›
Chains: B, E, H, K
Length: 97 amino acids
Theoretical weight: 10.97 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q15369 (Residues: 17-112; Coverage: 86%)
Gene names: ELOC, TCEB1
Sequence domains: Skp1 family, tetramerisation domain
Structure domains: Potassium Channel Kv1.1; Chain A
von Hippel-Lindau disease tumor suppressor Chains: C, F, I, L
Molecule details ›
Chains: C, F, I, L
Length: 163 amino acids
Theoretical weight: 18.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P40337 (Residues: 54-213; Coverage: 75%)
Gene name: VHL
Sequence domains:
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand ACT 6 x ACT
Ligand V6F 4 x V6F
Ligand ACY 1 x ACY
Ligand GOL 1 x GOL
1 modified residue:
Ligand CAS 12 x CAS

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P4122
Unit cell:
a: 93.4Å b: 93.4Å c: 362.04Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.222 0.22 0.264
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

42 review citations

Small molecules, big targets: drug discovery faces the protein-protein interaction challenge.
Scott et al. (2016)
41 more

3 mentions without citation

E3 Ligases Meet Their Match: Fragment-Based Approaches to Discover New E3 Ligands and to Unravel E3 Biology.
Michaelides et al. (2023)
2 more