5JHO

Crystal structure of the regulatory domain of the sodium driven chloride bicarbonate exchanger.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.202 

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This is version 1.2 of the entry. See complete history


Literature

The crystal structure of the regulatory domain of the human sodium-driven chloride/bicarbonate exchanger.

Alvadia, C.M.Sommer, T.Bjerregaard-Andersen, K.Damkier, H.H.Montrasio, M.Aalkjaer, C.Morth, J.P.

(2017) Sci Rep 7: 12131-12131

  • DOI: 10.1038/s41598-017-12409-0
  • Primary Citation of Related Structures:  
    5JHO

  • PubMed Abstract: 
  • The sodium-driven chloride/bicarbonate exchanger (NDCBE) is essential for maintaining homeostatic pH in neurons. The crystal structure at 2.8 Å resolution of the regulatory N-terminal domain of human NDCBE represents the first crystal structure of an electroneutral sodium-bicarbonate cotransporter ...

    The sodium-driven chloride/bicarbonate exchanger (NDCBE) is essential for maintaining homeostatic pH in neurons. The crystal structure at 2.8 Å resolution of the regulatory N-terminal domain of human NDCBE represents the first crystal structure of an electroneutral sodium-bicarbonate cotransporter. The crystal structure forms an equivalent dimeric interface as observed for the cytoplasmic domain of Band 3, and thus establishes that the consensus motif VTVLP is the key minimal dimerization motif. The VTVLP motif is highly conserved and likely to be the physiologically relevant interface for all other members of the SLC4 family. A novel conserved Zn 2+ -binding motif present in the N-terminal domain of NDCBE is identified and characterized in vitro. Cellular studies confirm the Zn 2+ dependent transport of two electroneutral bicarbonate transporters, NCBE and NBCn1. The Zn 2+ site is mapped to a cluster of histidines close to the conserved ETARWLKFEE motif and likely plays a role in the regulation of this important motif. The combined structural and bioinformatics analysis provides a model that predicts with additional confidence the physiologically relevant interface between the cytoplasmic domain and the transmembrane domain.


    Organizational Affiliation

    Institute for Experimental Medical Research, Oslo University Hospital, N-0424, Oslo, Norway. j.p.morth@ncmm.uio.no.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Electroneutral sodium bicarbonate exchanger 1A, B344Homo sapiensMutation(s): 0 
Gene Names: SLC4A8KIAA0739NBCNBC3NDCBE1
Find proteins for Q2Y0W8 (Homo sapiens)
Explore Q2Y0W8 
Go to UniProtKB:  Q2Y0W8
NIH Common Fund Data Resources
PHAROS:  Q2Y0W8
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.202 
  • Space Group: P 43 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 98.04α = 90
b = 98.04β = 90
c = 212.87γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
xia2data reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Research Council of NorwayNorwayES486454
Lundbeck foundationDenmarkR34-A3616

Revision History  (Full details and data files)

  • Version 1.0: 2017-08-16
    Type: Initial release
  • Version 1.1: 2017-10-04
    Changes: Database references
  • Version 1.2: 2018-01-31
    Changes: Author supporting evidence