5EUX | pdb_00005eux

Rat prestin STAS domain in complex with thiocyanate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.04 Å
  • R-Value Free: 
    0.198 (Depositor), 0.192 (DCC) 
  • R-Value Work: 
    0.163 (Depositor) 
  • R-Value Observed: 
    0.165 (Depositor) 

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 5EUX

This is version 1.3 of the entry. See complete history

Literature

The STAS domain of mammalian SLC26A5 prestin harbours an anion-binding site.

Lolli, G.Pasqualetto, E.Costanzi, E.Bonetto, G.Battistutta, R.

(2016) Biochem J 473: 365-370

  • DOI: https://doi.org/10.1042/BJ20151089
  • Primary Citation Related Structures: 
    5EUS, 5EUU, 5EUW, 5EUX, 5EUZ, 5EZB

  • PubMed Abstract: 

    Prestin is a unique ATP- and Ca(2+)-independent molecular motor with piezoelectric characteristics responsible for the electromotile properties of mammalian cochlear outer hair cells, i.e. the capacity of these cells to modify their length in response to electric stimuli. This 'electromotility' is at the basis of the exceptional sensitivity and frequency selectivity distinctive of mammals. Prestin belongs to the SLC26 (solute carrier 26) family of anion transporters and needs anions to function properly, particularly Cl(-). In the present study, using X-ray crystallography we reveal that the STAS (sulfate transporter and anti-sigma factor antagonist) domain of mammalian prestin, considered an 'incomplete' transporter, harbours an unanticipated anion-binding site. In parallel, we present the first crystal structure of a prestin STAS domain from a non-mammalian vertebrate prestin (chicken) that behaves as a 'full' transporter. Notably, in chicken STAS, the anion-binding site is lacking because of a local structural rearrangement, indicating that the presence of the STAS anion-binding site is exclusive to mammalian prestin.


  • Organizational Affiliation
    • Department of Chemical Sciences, University of Padua, via Marzolo 1, 35131 Padua, Italy graziano.lolli@unipd.it roberto.battistutta@unipd.it.

Macromolecule Content 

  • Total Structure Weight: 16.31 kDa 
  • Atom Count: 1,091 
  • Modeled Residue Count: 129 
  • Deposited Residue Count: 143 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Prestin,Prestin143Rattus norvegicusMutation(s): 0 
Gene Names: Slc26a5Pres
UniProt
Find proteins for Q9EPH0 (Rattus norvegicus)
Explore Q9EPH0 
Go to UniProtKB:  Q9EPH0
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9EPH0
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PG4

Query on PG4



Download:Ideal Coordinates CCD File
D [auth A]TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
PEG

Query on PEG



Download:Ideal Coordinates CCD File
C [auth A]DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
EDO

Query on EDO



Download:Ideal Coordinates CCD File
E [auth A],
F [auth A],
G [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
SCN

Query on SCN



Download:Ideal Coordinates CCD File
B [auth A]THIOCYANATE ION
C N S
ZMZDMBWJUHKJPS-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.04 Å
  • R-Value Free:  0.198 (Depositor), 0.192 (DCC) 
  • R-Value Work:  0.163 (Depositor) 
  • R-Value Observed: 0.165 (Depositor) 
Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.365α = 90
b = 62.365β = 90
c = 66.755γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Community's Seventh Framework Programme (FP7/2007-2013) under BioStruct-Xgrant agreement Number 283570)
Fondazione Cassa di Risparmio di Padova e RovigoProgetto di Eccellenza

Revision History  (Full details and data files)

  • Version 1.0: 2015-12-16
    Type: Initial release
  • Version 1.1: 2016-02-17
    Changes: Database references
  • Version 1.2: 2017-12-20
    Changes: Database references
  • Version 1.3: 2024-01-10
    Changes: Data collection, Database references, Refinement description