3JVZ image
Deposition Date 2009-09-17
Release Date 2010-01-12
Last Version Date 2024-10-09
Entry Detail
PDB ID:
3JVZ
Title:
E2~Ubiquitin-HECT
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.30 Å
R-Value Free:
0.26
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
C 2 2 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ubiquitin-conjugating enzyme E2 D2
Gene (Uniprot):UBE2D2
Mutagens:L3S, C85S, T98K
Chain IDs:A, B
Chain Length:146
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:E3 ubiquitin-protein ligase NEDD4-like
Gene (Uniprot):NEDD4L
Mutagens:576-949, C922A
Chain IDs:C, D
Chain Length:385
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ubiquitin
Mutagens:Ubiquitin G76 ester linked to UbcH5B S85
Chain IDs:E (auth: X), F (auth: Y)
Chain Length:81
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Insights into ubiquitin transfer cascades from a structure of a UbcH5B approximately ubiquitin-HECT(NEDD4L) complex.
Mol.Cell 36 1095 1102 (2009)
PMID: 20064473 DOI: 10.1016/j.molcel.2009.11.010

Abstact

In E1-E2-E3 ubiquitin (Ub) conjugation cascades, the E2 first forms a transient E2 approximately Ub covalent complex and then interacts with an E3 for Ub transfer. For cascades involving E3s in the HECT class, Ub is transferred from an associated E2 to the acceptor cysteine in the HECT domain C lobe. To gain insights into this process, we determined the crystal structure of a complex between the HECT domain of NEDD4L and the E2 UbcH5B bearing a covalently linked Ub at its active site (UbcH5B approximately Ub). Noncovalent interactions between UbcH5B and the HECT N lobe and between Ub and the HECT domain C lobe lead to an overall compact structure, with the Ub C terminus sandwiched between UbcH5B and HECT domain active sites. The structure suggests a model for E2-to-HECT Ub transfer, in which interactions between a donor Ub and an acceptor domain constrain upstream and downstream enzymes for conjugation.

Legend

Protein

Chemical

Disease

Primary Citation of related structures