8VSI

Mechanistic Insights Revealed by YbtPQ in the Occluded State


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Mechanistic Insights Revealed by YbtPQ in the Occluded State.

Hu, W.Parkinson, C.Zheng, H.

(2024) Biomolecules 14

  • DOI: https://doi.org/10.3390/biom14030322
  • Primary Citation of Related Structures:  
    8VSI

  • PubMed Abstract: 

    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.


  • Organizational Affiliation

    Department of Biochemistry and Molecular Genetics, School of Medicine, University of Colorado Anschutz Medical Campus, Mail Stop 8101, Aurora, CO 80045, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ABC transporter ATP-binding protein600Escherichia coliMutation(s): 0 
Gene Names: 
EC: 3.6.3
Membrane Entity: Yes 
UniProt
Find proteins for A0A1D7Q186 (Escherichia coli)
Explore A0A1D7Q186 
Go to UniProtKB:  A0A1D7Q186
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D7Q186
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Permease and ATP-binding protein of yersiniabactin-iron ABC transporter YbtQ600Escherichia coliMutation(s): 0 
Gene Names: irp_2NCTC11341_06313
EC: 3.6.3
Membrane Entity: Yes 
UniProt
Find proteins for A0A376P7T7 (Escherichia coli)
Explore A0A376P7T7 
Go to UniProtKB:  A0A376P7T7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A376P7T7
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI175646

Revision History  (Full details and data files)

  • Version 1.0: 2024-04-10
    Type: Initial release