› 2xbf

X-ray diffraction
2.5Å resolution

Nedd4 HECT structure

Released:
DOI: 10.2210/pdb2xbf/pdb
PDB entry 2xbf coloured by chain, front view.
PDB entry 2xbf coloured by chain, side view.
PDB entry 2xbf coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of the HECT:ubiquitin complex and its role in ubiquitin chain elongation.
Maspero E, Mari S, Valentini E, Musacchio A, Fish A, Pasqualato S, Polo S
EMBO Rep 12 342-9 (2011)
PMID: 21399620

Function and Biology Details

Reaction catalysed: 
(1a) S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [HECT-type E3 ubiquitin transferase]-L-cysteine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + S-ubiquitinyl-[HECT-type E3 ubiquitin transferase]-L-cysteine
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155546 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
E3 ubiquitin-protein ligase NEDD4 Chain: A
Molecule details ›
Chain: A
Length: 386 amino acids
Theoretical weight: 45.78 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P46934 (Residues: 938-1319; Coverage: 29%)
Gene names: KIAA0093, NEDD4, NEDD4-1, PIG53, RPF1
Sequence domains: HECT-domain (ubiquitin-transferase)
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand EDO 4 x EDO
Ligand CA 1 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: C2
Unit cell:
a: 175.405Å b: 38.843Å c: 60.64Å
α: 90° β: 93.13° γ: 90°
R-values:
R R work R free
0.2 0.197 0.256
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

31 review citations

The ubiquitin code.
Komander et al. (2012)
30 more

10 mentions without citation

Macromolecular juggling by ubiquitylation enzymes.
Lorenz et al. (2013)
9 more