8WBY | pdb_00008wby

Cryo-EM structure of ACE2-B0AT1 complex with JX98


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.18 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 8WBY

This is version 1.1 of the entry. See complete history

Literature

Molecular basis of inhibition of the amino acid transporter B 0 AT1 (SLC6A19).

Xu, J.Hu, Z.Dai, L.Yadav, A.Jiang, Y.Broer, A.Gardiner, M.G.McLeod, M.Yan, R.Broer, S.

(2024) Nat Commun 15: 7224-7224

  • DOI: https://doi.org/10.1038/s41467-024-51748-1
  • Primary Citation Related Structures: 
    8WBY, 8WBZ

  • PubMed Abstract: 

    The epithelial neutral amino acid transporter B 0 AT1 (SLC6A19) is the major transporter for the absorption of neutral amino acids in the intestine and their reabsorption in the kidney. Mouse models have demonstrated that lack of B 0 AT1 can normalize elevated plasma amino acids in rare disorders of amino acid metabolism such as phenylketonuria and urea-cycle disorders, implying a pharmacological approach for their treatment. Here we employ a medicinal chemistry approach to generate B 0 AT1 inhibitors with IC 50 -values of 31-90 nM. High-resolution cryo-EM structures of B 0 AT1 in the presence of two compounds from this series identified an allosteric binding site in the vestibule of the transporter. Mechanistically, binding of these inhibitors prevents a movement of TM1 and TM6 that is required for the transporter to make a conformational change from an outward open state to the occluded state.


  • Organizational Affiliation
    • Research School of Chemistry, Australian National University, Canberra, ACT, Australia.

Macromolecule Content 

  • Total Structure Weight: 341.12 kDa 
  • Atom Count: 22,232 
  • Modeled Residue Count: 2,708 
  • Deposited Residue Count: 2,936 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Sodium-dependent neutral amino acid transporter B(0)AT1
A, D
651Homo sapiensMutation(s): 0 
Gene Names: SLC6A19
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q695T7 (Homo sapiens)
Explore Q695T7 
Go to UniProtKB:  Q695T7
PHAROS:  Q695T7
GTEx:  ENSG00000174358 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ695T7
Glycosylation
Glycosylation Sites: 2Go to GlyGen: Q695T7-1
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Angiotensin-converting enzyme 2
B, C
817Homo sapiensMutation(s): 0 
Gene Names: ACE2
EC: 3.4.17 (UniProt), 3.4.17.23 (UniProt)
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BYF1 (Homo sapiens)
Explore Q9BYF1 
Go to UniProtKB:  Q9BYF1
PHAROS:  Q9BYF1
GTEx:  ENSG00000130234 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BYF1
Glycosylation
Glycosylation Sites: 6Go to GlyGen: Q9BYF1-1
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.18 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32371267

Revision History  (Full details and data files)

  • Version 1.0: 2024-09-11
    Type: Initial release
  • Version 1.1: 2024-11-13
    Changes: Data collection, Structure summary