1MSI

STRUCTURE OF ANTIFREEZE GLYCOPROTEIN QAE(HPLC 12)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis for the binding of a globular antifreeze protein to ice.

Jia, Z.DeLuca, C.I.Chao, H.Davies, P.L.

(1996) Nature 384: 285-288

  • DOI: 10.1038/384285a0
  • Primary Citation of Related Structures:  
  • Also Cited By: 2SPG

  • PubMed Abstract: 
  • Antifreeze proteins (AFPs) have the unique ability to adsorb to ice and inhibit its growth. Many organisms ranging from fish to bacteria use AFPs to retard freezing or lessen the damage incurred upon freezing and thawing. The ice-binding mechanism of ...

    Antifreeze proteins (AFPs) have the unique ability to adsorb to ice and inhibit its growth. Many organisms ranging from fish to bacteria use AFPs to retard freezing or lessen the damage incurred upon freezing and thawing. The ice-binding mechanism of the long linear alpha-helical type I AFPs has been attributed to their regularly spaced polar residues matching the ice lattice along a pyramidal plane. In contrast, it is not known how globular antifreeze proteins such as type III AFP that lack repeating ice-binding residues bind to ice. Here we report the 1.25 A crystal structure of recombinant type III AFP (QAE isoform) from eel pout (Macrozoarces americanus), which reveals a remarkably flat amphipathic ice-binding site where five hydrogen-bonding atoms match two ranks of oxygens on the [1010] ice prism plane in the <0001> direction, giving high ice-binding affinity and specificity. This binding site, substantiated by the structures and properties of several ice-binding site mutants, suggests that the AFP occupies a niche in the ice surface in which it covers the basal plane while binding to the prism face.


    Related Citations: 
    • Multiple Genes Provide the Basis for Antifreeze Protein Diversity and Dosage in the Ocean Pout, Macrozoarces Americanus
      Hew, C.L.,Wang, N.C.,Joshi, S.,Fletcher, G.L.,Scott, G.K.,Hayes, P.H.,Buettner, B.,Davies, P.L.
      (1988) J.Biol.Chem. 263: 12049
    • Erratum. Structural Basis for the Binding of a Globular Antifreeze Protein to Ice
      Jia, Z.,Deluca, C.I.,Chao, H.,Davies, P.L.
      (1997) Nature 385: 555
    • Use of Proline Mutants to Help Solve the NMR Solution Structure of Type III Antifreeze Protein
      Chao, H.,Davies, P.L.,Sykes, B.D.,Sonnichsen, F.D.
      (1993) Protein Sci. 2: 1411
    • Crystallization and Preliminary X-Ray Crystallographic Studies on Type III Antifreeze Protein
      Jia, Z.,Deluca, C.I.,Davies, P.L.
      (1995) Protein Sci. 4: 1236


    Organizational Affiliation

    Department of Biochemistry, Queen's University, Kingston, Ontario, Canada. jia@crystal.biochem.queensu.ca




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TYPE III ANTIFREEZE PROTEIN ISOFORM HPLC 12
A
70Zoarces americanusMutation(s): 1 
Find proteins for P19614 (Zoarces americanus)
Go to UniProtKB:  P19614
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.198 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 32.328α = 90.00
b = 38.893β = 90.00
c = 45.483γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
X-PLORrefinement
X-PLORmodel building
DENZOdata reduction
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-12-24
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance