7MJS

Single-Particle Cryo-EM Structure of Major Facilitator Superfamily Domain containing 2A in complex with LPC-18:3


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.03 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural basis of omega-3 fatty acid transport across the blood-brain barrier.

Cater, R.J.Chua, G.L.Erramilli, S.K.Keener, J.E.Choy, B.C.Tokarz, P.Chin, C.F.Quek, D.Q.Y.Kloss, B.Pepe, J.G.Parisi, G.Wong, B.H.Clarke, O.B.Marty, M.T.Kossiakoff, A.A.Khelashvili, G.Silver, D.L.Mancia, F.

(2021) Nature 595: 315-319

  • DOI: https://doi.org/10.1038/s41586-021-03650-9
  • Primary Citation of Related Structures:  
    7MJS

  • PubMed Abstract: 

    Docosahexaenoic acid is an omega-3 fatty acid that is essential for neurological development and function, and it is supplied to the brain and eyes predominantly from dietary sources 1-6 . This nutrient is transported across the blood-brain and blood-retina barriers in the form of lysophosphatidylcholine by major facilitator superfamily domain containing 2A (MFSD2A) in a Na + -dependent manner 7,8 . Here we present the structure of MFSD2A determined using single-particle cryo-electron microscopy, which reveals twelve transmembrane helices that are separated into two pseudosymmetric domains. The transporter is in an inward-facing conformation and features a large amphipathic cavity that contains the Na + -binding site and a bound lysolipid substrate, which we confirmed using native mass spectrometry. Together with our functional analyses and molecular dynamics simulations, this structure reveals details of how MFSD2A interacts with substrates and how Na + -dependent conformational changes allow for the release of these substrates into the membrane through a lateral gate. Our work provides insights into the molecular mechanism by which this atypical major facility superfamily transporter mediates the uptake of lysolipids into the brain, and has the potential to aid in the delivery of neurotherapeutic agents.


  • Organizational Affiliation

    Department of Physiology and Cellular Biophysics, Columbia University, New York, NY, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
2AG3 Fab heavy chainA [auth H]240synthetic constructMutation(s): 0 
Entity Groups  
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Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
2AG3 Fab light chainB [auth L]217synthetic constructMutation(s): 0 
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Major Facilitator Superfamily Domain containing 2AC [auth X]546Gallus gallusMutation(s): 0 
Gene Names: MFSD2A
Membrane Entity: Yes 
UniProt
Find proteins for F1NCD6 (Gallus gallus)
Explore F1NCD6 
Go to UniProtKB:  F1NCD6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF1NCD6
Glycosylation
Glycosylation Sites: 2
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZGS (Subject of Investigation/LOI)
Query on ZGS

Download Ideal Coordinates CCD File 
D [auth X][(2~{R})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{Z},12~{Z},15~{Z})-octadeca-9,12,15-trienoate
C26 H49 N O7 P
WKQNRCYKYCKESD-YVHLTTHBSA-O
NAG
Query on NAG

Download Ideal Coordinates CCD File 
E [auth X],
F [auth X]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.03 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 General Medical Sciences (NIH/NIGMS)United StatesGM132120
National Institutes of Health/National Institute of Mental Health (NIH/NIMH)United StatesMH12564
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM128624
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM117372
National Research Foundation (NRF, Singapore)SingaporeNRF-NRFI2017-05
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM116799
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM103310

Revision History  (Full details and data files)

  • Version 1.0: 2021-06-16
    Type: Initial release
  • Version 1.1: 2021-07-14
    Changes: Database references
  • Version 1.2: 2021-07-28
    Changes: Database references
  • Version 1.3: 2024-11-13
    Changes: Data collection, Database references, Structure summary