5JHO

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.801 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.200 

wwPDB Validation 3D Report Full Report


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

  • 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 ...

    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 Zn2+-binding motif present in the N-terminal domain of NDCBE is identified and characterized in vitro. Cellular studies confirm the Zn2+ dependent transport of two electroneutral bicarbonate transporters, NCBE and NBCn1. The Zn2+ 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

    Norwegian Centre for Molecular Medicine, Nordic EMBL Partnership University of Oslo, Gaustadalléen 21, 0349, Oslo, Norway.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Electroneutral sodium bicarbonate exchanger 1
A, B
344Homo sapiensMutation(s): 0 
Gene Names: SLC4A8 (KIAA0739, NBC, NBC3, NDCBE1)
Find proteins for Q2Y0W8 (Homo sapiens)
Go to Gene View: SLC4A8
Go to UniProtKB:  Q2Y0W8
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.801 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.200 
  • Space Group: P 43 2 2
Unit Cell:
Length (Å)Angle (°)
a = 98.040α = 90.00
b = 98.040β = 90.00
c = 212.870γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
XSCALEdata scaling
xia2data reduction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Research Council of NorwayNorwayES486454
Lundbeck foundationDenmarkR34-A3616

Revision History 

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