6VCD image
Deposition Date 2019-12-20
Release Date 2020-08-05
Last Version Date 2024-03-06
Entry Detail
PDB ID:
6VCD
Keywords:
Title:
Cryo-EM structure of IRP2-FBXL5-SKP1 complex
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.00 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Iron-responsive element binding protein 2, isoform CRA_a
Chain IDs:A
Chain Length:963
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:F-box/LRR-repeat protein 5
Gene (Uniprot):FBXL5
Chain IDs:B
Chain Length:492
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:S-phase kinase-associated protein 1
Gene (Uniprot):SKP1
Chain IDs:C
Chain Length:163
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
FBXL5 Regulates IRP2 Stability in Iron Homeostasis via an Oxygen-Responsive [2Fe2S] Cluster.
Mol.Cell 78 31 41.e5 (2020)
PMID: 32126207 DOI: 10.1016/j.molcel.2020.02.011

Abstact

Cellular iron homeostasis is dominated by FBXL5-mediated degradation of iron regulatory protein 2 (IRP2), which is dependent on both iron and oxygen. However, how the physical interaction between FBXL5 and IRP2 is regulated remains elusive. Here, we show that the C-terminal substrate-binding domain of FBXL5 harbors a [2Fe2S] cluster in the oxidized state. A cryoelectron microscopy (cryo-EM) structure of the IRP2-FBXL5-SKP1 complex reveals that the cluster organizes the FBXL5 C-terminal loop responsible for recruiting IRP2. Interestingly, IRP2 binding to FBXL5 hinges on the oxidized state of the [2Fe2S] cluster maintained by ambient oxygen, which could explain hypoxia-induced IRP2 stabilization. Steric incompatibility also allows FBXL5 to physically dislodge IRP2 from iron-responsive element RNA to facilitate its turnover. Taken together, our studies have identified an iron-sulfur cluster within FBXL5, which promotes IRP2 polyubiquitination and degradation in response to both iron and oxygen concentrations.

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Primary Citation of related structures