5NLZ

GRIFIN (Crystallisation pH: 4.2)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.149 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.138 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Chicken GRIFIN: Structural characterization in crystals and in solution.

Ruiz, F.M.Gilles, U.Ludwig, A.K.Sehad, C.Shiao, T.C.Garcia Caballero, G.Kaltner, H.Lindner, I.Roy, R.Reusch, D.Romero, A.Gabius, H.J.

(2018) Biochimie 146: 127-138

  • DOI: 10.1016/j.biochi.2017.12.003
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Despite its natural abundance in lenses of vertebrates the physiological function(s) of the galectin-related inter-fiber protein (GRIFIN) is (are) still unclear. The same holds true for the significance of the unique interspecies (fish/birds vs mamma ...

    Despite its natural abundance in lenses of vertebrates the physiological function(s) of the galectin-related inter-fiber protein (GRIFIN) is (are) still unclear. The same holds true for the significance of the unique interspecies (fish/birds vs mammals) variability in the capacity to bind lactose. In solution, ultracentrifugation and small angle X-ray scattering (at concentrations up to 9 mg/mL) characterize the protein as compact and stable homodimer without evidence for aggregation. The crystal structure of chicken (C-)GRIFIN at seven pH values from 4.2 to 8.5 is reported, revealing compelling stability. Binding of lactose despite the Arg71Val deviation from the sequence signature of galectins matched the otherwise canonical contact pattern with thermodynamics of an enthalpically driven process. Upon lactose accommodation, the side chain of Arg50 is shifted for hydrogen bonding to the 3-hydroxyl of glucose. No evidence for a further ligand-dependent structural alteration was obtained in solution by measuring hydrogen/deuterium exchange mass spectrometrically in peptic fingerprints. The introduction of the Asn48Lys mutation, characteristic for mammalian GRIFINs that have lost lectin activity, lets labeled C-GRIFIN maintain capacity to stain tissue sections. Binding is no longer inhibitable by lactose, as seen for the wild-type protein. These results establish the basis for detailed structure-activity considerations and are a step to complete the structural description of all seven members of the galectin network in chicken.


    Organizational Affiliation

    Chemical and Physical Biology, Centro de Investigaciones Biológicas, CSIC, Ramiro de Maeztu 9, 28040 Madrid, Spain.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Galectin
A, B
139Gallus gallusMutation(s): 0 
Gene Names: GRIFIN
Find proteins for F1NZ18 (Gallus gallus)
Go to Gene View: GRIFIN
Go to UniProtKB:  F1NZ18
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.149 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.138 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 39.093α = 90.00
b = 60.830β = 92.57
c = 53.999γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
PHENIXphasing
XDSdata reduction
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2017-04-05 
  • Released Date: 2018-02-14 
  • Deposition Author(s): Ruiz, F.M., Romero, A.

Funding OrganizationLocationGrant Number
European Union317297 (GLYCOPHARM)

Revision History 

  • Version 1.0: 2018-02-14
    Type: Initial release
  • Version 1.1: 2018-02-21
    Type: Database references