6F2G

Bacterial asc transporter crystal structure in open to in conformation


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.92 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.238 
  • R-Value Observed: 0.239 

Starting Models: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

L amino acid transporter structure and molecular bases for the asymmetry of substrate interaction.

Errasti-Murugarren, E.Fort, J.Bartoccioni, P.Diaz, L.Pardon, E.Carpena, X.Espino-Guarch, M.Zorzano, A.Ziegler, C.Steyaert, J.Fernandez-Recio, J.Fita, I.Palacin, M.

(2019) Nat Commun 10: 1807-1807

  • DOI: https://doi.org/10.1038/s41467-019-09837-z
  • Primary Citation of Related Structures:  
    6F2G, 6F2W

  • PubMed Abstract: 

    L-amino acid transporters (LATs) play key roles in human physiology and are implicated in several human pathologies. LATs are asymmetric amino acid exchangers where the low apparent affinity cytoplasmic side controls the exchange of substrates with high apparent affinity on the extracellular side. Here, we report the crystal structures of an LAT, the bacterial alanine-serine-cysteine exchanger (BasC), in a non-occluded inward-facing conformation in both apo and substrate-bound states. We crystallized BasC in complex with a nanobody, which blocks the transporter from the intracellular side, thus unveiling the sidedness of the substrate interaction of BasC. Two conserved residues in human LATs, Tyr 236 and Lys 154, are located in equivalent positions to the Na1 and Na2 sites of sodium-dependent APC superfamily transporters. Functional studies and molecular dynamics (MD) calculations reveal that these residues are key for the asymmetric substrate interaction of BasC and in the homologous human transporter Asc-1.


  • Organizational Affiliation

    Institute for Research in Biomedicine (IRB Barcelona), Barcelona Institute of Science and Technology, 08028, Barcelona, Spain.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Putative amino acid/polyamine transport protein444Carnobacterium sp. AT7Mutation(s): 0 
Gene Names: CAT7_03719
Membrane Entity: Yes 
UniProt
Find proteins for A8UCQ5 (Carnobacterium sp. AT7)
Explore A8UCQ5 
Go to UniProtKB:  A8UCQ5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA8UCQ5
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Nanobody 74134Lama glamaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
C [auth B]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.92 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.238 
  • R-Value Observed: 0.239 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.83α = 90
b = 85.83β = 90
c = 321.69γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
STARANISOdata scaling
autoPROCdata scaling
PHASERphasing
XDSdata reduction
pointlessdata scaling
Aimlessdata scaling

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Spain--

Revision History  (Full details and data files)

  • Version 1.0: 2019-04-24
    Type: Initial release
  • Version 1.1: 2019-05-01
    Changes: Data collection, Database references
  • Version 1.2: 2024-01-17
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.3: 2024-10-16
    Changes: Structure summary