8VSI image
Deposition Date 2024-01-24
Release Date 2024-04-10
Last Version Date 2025-05-14
Entry Detail
PDB ID:
8VSI
Title:
Mechanistic Insights Revealed by YbtPQ in the Occluded State
Biological Source:
Source Organism:
Escherichia coli (Taxon ID: 562)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.10 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:ABC transporter ATP-binding protein
Gene (Uniprot):ybtP
Chain IDs:A
Chain Length:600
Number of Molecules:1
Biological Source:Escherichia coli
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Permease and ATP-binding protein of yersiniabactin-iron ABC transporter YbtQ
Gene (Uniprot):irp_2
Chain IDs:B
Chain Length:600
Number of Molecules:1
Biological Source:Escherichia coli
Primary Citation
Mechanistic Insights Revealed by YbtPQ in the Occluded State.
Biomolecules 14 ? ? (2024)
PMID: 38540742 DOI: 10.3390/biom14030322

Abstact

Recently, several ATP-binding cassette (ABC) importers have been found to adopt the typical fold of type IV ABC exporters. Presumably, these importers would function under the transport scheme of "alternating access" like those exporters, cycling through inward-open, occluded, and outward-open conformations. Understanding how the exporter-like importers move substrates in the opposite direction requires structural studies on all the major conformations. To shed light on this, here we report the structure of yersiniabactin importer YbtPQ from uropathogenic Escherichia coli in the occluded conformation trapped by ADP-vanadate (ADP-Vi) at a 3.1 Å resolution determined by cryo-electron microscopy. The structure shows unusual local rearrangements in multiple helices and loops in its transmembrane domains (TMDs). In addition, the dimerization of the nucleotide-binding domains (NBDs) promoted by the vanadate trapping is highlighted by the "screwdriver" action at one of the two hinge points. These structural observations are rare and thus provide valuable information to understand the structural plasticity of the exporter-like ABC importers.

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