8XPU | pdb_00008xpu

Overall structure of the LAT1-4F2hc bound with JPH203

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history. 


Literature

Structural basis for the inhibition mechanism of LAT1-4F2hc complex by JPH203.

Hu, Z., Yan, R.

(2024) Cell Discov 10: 73-73

  • DOI: https://doi.org/10.1038/s41421-024-00697-6
  • Primary Citation of Related Structures:  
    8XPU
    • Organizational Affiliation: 
    • Department of Biochemistry, School of Medicine, Key University Laboratory of Metabolism and Health of Guangdong, Institute for Biological Electron Microscopy, Southern University of Science and Technology, Shenzhen, Guangdong, China.

Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Isoform 5 of Amino acid transporter heavy chain SLC3A2647Homo sapiensMutation(s): 0 
Gene Names: SLC3A2, MDU1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P08195 (Homo sapiens)
Explore P08195 
Go to UniProtKB:  P08195
PHAROS:  P08195
GTEx:  ENSG00000168003 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08195
Glycosylation
Glycosylation Sites: 3
Go to GlyGen: P08195-1
Sequence Annotations
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  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Large neutral amino acids transporter small subunit 1527Homo sapiensMutation(s): 0 
Gene Names: SLC7A5, CD98LC, LAT1, MPE16
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q01650 (Homo sapiens)
Explore Q01650 
Go to UniProtKB:  Q01650
PHAROS:  Q01650
GTEx:  ENSG00000103257 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ01650
Sequence Annotations
Expand
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
C, D, E, F
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
VRW
Query on VRW
Download Ideal Coordinates CCD File 
G [auth B]Nanvuranlat
C23 H19 Cl2 N3 O4
XNRZJPQTMQZBCE-SFHVURJKSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
VRW BindingDB:  8XPU IC50: min: 60, max: 790 (nM) from 2 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

  • Released Date: 2024-07-17 
    • Deposition Author(s): Hu, Z., Yan, R.
Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32371267

Revision History  (Full details and data files)

  • Version 1.0: 2024-07-17
    Type: Initial release
  • Version 1.1: 2024-07-24
    Changes: Data collection
  • Version 1.2: 2024-07-31
    Changes: Data collection, Structure summary
  • Version 1.3: 2024-11-13
    Changes: Data collection, Structure summary
  • Version 1.4: 2024-11-20
    Changes: Data collection, Derived calculations, Structure summary
  • Version 1.5: 2025-07-23
    Changes: Data collection