1JV5

Anti-blood group A Fv


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.183 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structure of an anti-blood group A Fv and improvement of its binding affinity without loss of specificity.

Thomas, R.Patenaude, S.I.MacKenzie, C.R.To, R.Hirama, T.Young, N.M.Evans, S.V.

(2002) J.Biol.Chem. 277: 2059-2064

  • DOI: 10.1074/jbc.M104364200

  • PubMed Abstract: 
  • The specificity of antibody recognition of the ABO blood group trisaccharide antigens has been explored by crystal structure analysis and mutation methods. The crystal structure of the Fv corresponding to the anti-blood group A antibody AC1001 has be ...

    The specificity of antibody recognition of the ABO blood group trisaccharide antigens has been explored by crystal structure analysis and mutation methods. The crystal structure of the Fv corresponding to the anti-blood group A antibody AC1001 has been determined to 2.2-A resolution and reveals a binding pocket that is complementary to the blood group A-trisaccharide antigen. The effect of mutating specific residues lining this pocket on binding to the A and B blood group oligosaccharide antigens was investigated through a panel of single point mutations and through a phage library of mutations in complementarity determining region H3. Both approaches gave several mutants with improved affinity for antigen. Surface plasmon resonance indicated up to 8-fold enhancement in affinity for the A-pentasaccharide with no observable binding to the blood group B antigen. This is the first example of single point mutations in a carbohydrate-binding antibody resulting in significant increases in binding affinity without loss of specificity.


    Related Citations: 
    • Production, crystallization and diffraction to atomic resolution of an antibody Fv specific for the blood-group A oligosaccharide antigen
      Patenaude, S.I.,MacKenzie, C.R.,Bilous, D.,To, R.J.,Ryan, S.E.,Young, N.M.,Evans, S.V.
      (1998) Acta Crystallogr.,Sect.D 54: 1456


    Organizational Affiliation

    Department of Biochemistry, Microbiology and Immunology, University of Ottawa, Ottawa, Ontario K1H 8M5, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ig kappa chain precursor V region
A
107Homo sapiensN/A
Find proteins for P01594 (Homo sapiens)
Go to UniProtKB:  P01594
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Ig chain heavy chain precursor V region
B
117N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.183 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 51.710α = 90.00
b = 57.960β = 90.00
c = 83.580γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
CAD4data reduction
MERLOTphasing
CAD4data collection
CCP4data scaling
ROTAVATAdata scaling
ROTAVATAdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-01-09
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-04
    Type: Refinement description