2KNB image
Deposition Date 2009-08-20
Release Date 2009-12-22
Last Version Date 2025-07-16
Entry Detail
PDB ID:
2KNB
Keywords:
Title:
Solution NMR structure of the parkin Ubl domain in complex with the endophilin-A1 SH3 domain
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Conformers Calculated:
200
Conformers Submitted:
20
Selection Criteria:
structures with the lowest energy
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:E3 ubiquitin-protein ligase parkin
Gene (Uniprot):Prkn
Chain IDs:A
Chain Length:81
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Endophilin-A1
Gene (Uniprot):Sh3gl2
Chain IDs:B
Chain Length:71
Number of Molecules:1
Biological Source:Rattus norvegicus
Ligand Molecules
Primary Citation
SH3 domains from a subset of BAR proteins define a Ubl-binding domain and implicate parkin in synaptic ubiquitination.
Mol.Cell 36 1034 1047 (2009)
PMID: 20064468 DOI: 10.1016/j.molcel.2009.11.021

Abstact

Mutations in the parkin gene are responsible for a common inherited form of Parkinson's disease (PD). Parkin is a RING-type E3 ubiquitin ligase with an N-terminal ubiquitin-like domain (Ubl). We report here that the parkin Ubl binds SH3 domains from endocytic BAR proteins such as endophilin-A with an affinity comparable to proline-rich domains (PRDs) from well-established SH3 partners. The NMR structure of the Ubl-SH3 complex identifies the PaRK extension, a unique C-terminal motif in the parkin Ubl required for SH3 binding and for parkin-mediated ubiquitination of endophilin-A in vitro. In nerve terminals, conditions that promote phosphorylation enhance the interaction between parkin and endophilin-A and increase the levels of ubiquitinated proteins within PRD-associated synaptic protein complexes in wild-type but not parkin knockout brain. The findings identify a pathway for the recruitment of synaptic substrates to parkin with the potential to explain the defects in synaptic transmission observed in recessive forms of PD.

Legend

Protein

Chemical

Disease

Primary Citation of related structures