8OTX

Cryo-EM structure of Strongylocentrotus purpuratus sperm-specific Na+/H+ exchanger SLC9C1 in nanodisc


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.08 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

Structure and electromechanical coupling of a voltage-gated Na + /H + exchanger.

Yeo, H.Mehta, V.Gulati, A.Drew, D.

(2023) Nature 623: 193-201

  • DOI: https://doi.org/10.1038/s41586-023-06518-2
  • Primary Citation of Related Structures:  
    8OTQ, 8OTW, 8OTX

  • PubMed Abstract: 

    Voltage-sensing domains control the activation of voltage-gated ion channels, with a few exceptions 1 . One such exception is the sperm-specific Na + /H + exchanger SLC9C1, which is the only known transporter to be regulated by voltage-sensing domains 2-5 . After hyperpolarization of sperm flagella, SLC9C1 becomes active, causing pH alkalinization and CatSper Ca 2+ channel activation, which drives chemotaxis 2,6 . SLC9C1 activation is further regulated by cAMP 2,7 , which is produced by soluble adenyl cyclase (sAC). SLC9C1 is therefore an essential component of the pH-sAC-cAMP signalling pathway in metazoa 8,9 , required for sperm motility and fertilization 4 . Despite its importance, the molecular basis of SLC9C1 voltage activation is unclear. Here we report cryo-electron microscopy (cryo-EM) structures of sea urchin SLC9C1 in detergent and nanodiscs. We show that the voltage-sensing domains are positioned in an unusual configuration, sandwiching each side of the SLC9C1 homodimer. The S4 segment is very long, 90 Å in length, and connects the voltage-sensing domains to the cytoplasmic cyclic-nucleotide-binding domains. The S4 segment is in the up configuration-the inactive state of SLC9C1. Consistently, although a negatively charged cavity is accessible for Na + to bind to the ion-transporting domains of SLC9C1, an intracellular helix connected to S4 restricts their movement. On the basis of the differences in the cryo-EM structure of SLC9C1 in the presence of cAMP, we propose that, upon hyperpolarization, the S4 segment moves down, removing this constriction and enabling Na + /H + exchange.


  • Organizational Affiliation

    Department of Biochemistry and Biophysics, Science for Life Laboratory, Stockholm University, Stockholm, Sweden.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Sperm-specific sodium proton exchangerA [auth B],
B [auth A]
1,331Strongylocentrotus purpuratusMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A3RL54 (Strongylocentrotus purpuratus)
Explore A3RL54 
Go to UniProtKB:  A3RL54
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA3RL54
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.08 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European UnionERC-CoG-820187

Revision History  (Full details and data files)

  • Version 1.0: 2023-11-01
    Type: Initial release
  • Version 1.1: 2023-11-08
    Changes: Database references
  • Version 1.2: 2023-11-15
    Changes: Database references
  • Version 1.3: 2023-11-22
    Changes: Database references