4AUQ image
Deposition Date 2012-05-21
Release Date 2012-08-15
Last Version Date 2023-12-20
Entry Detail
PDB ID:
4AUQ
Title:
Structure of BIRC7-UbcH5b-Ub complex.
Biological Source:
Source Organism:
HOMO SAPIENS (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.18 Å
R-Value Free:
0.24
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 43 21 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:UBIQUITIN-CONJUGATING ENZYME E2 D2
Gene (Uniprot):UBE2D2
Mutations:YES
Chain IDs:A, D
Chain Length:147
Number of Molecules:2
Biological Source:HOMO SAPIENS
Polymer Type:polypeptide(L)
Molecule:BACULOVIRAL IAP REPEAT-CONTAINING PROTEIN 7
Gene (Uniprot):BIRC7
Chain IDs:B, E
Chain Length:62
Number of Molecules:2
Biological Source:HOMO SAPIENS
Polymer Type:polypeptide(L)
Molecule:POLYUBIQUITIN-C
Gene (Uniprot):UBC
Chain IDs:C, F
Chain Length:81
Number of Molecules:2
Biological Source:HOMO SAPIENS
Ligand Molecules
Primary Citation
Birc7-E2 Ubiquitin Conjugate Structure Reveals the Mechanism of Ubiquitin Transfer by a Ring Dimer.
Nat.Struct.Mol.Biol. 19 876 ? (2012)
PMID: 22902369 DOI: 10.1038/NSMB.2379

Abstact

Certain RING ubiquitin ligases (E3s) dimerize to facilitate ubiquitin (Ub) transfer from ubiquitin-conjugating enzyme (E2) to substrate, but structural evidence on how this process promotes Ub transfer is lacking. Here we report the structure of the human dimeric RING domain from BIRC7 in complex with the E2 UbcH5B covalently linked to Ub (UbcH5B∼Ub). The structure reveals extensive noncovalent donor Ub interactions with UbcH5B and both subunits of the RING domain dimer that stabilize the globular body and C-terminal tail of Ub. Mutations that disrupt these noncovalent interactions or RING dimerization reduce UbcH5B∼Ub binding affinity and ubiquitination activity. Moreover, NMR analyses demonstrate that BIRC7 binding to UbcH5B∼Ub induces peak-shift perturbations in the donor Ub consistent with the crystallographically-observed Ub interactions. Our results provide structural insights into how dimeric RING E3s recruit E2∼Ub and optimize the donor Ub configuration for transfer.

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