3CDC

kI O18/O8 N34I/Y87H immunoglobulin light chain variable domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.189 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural insights into the role of mutations in amyloidogenesis.

Baden, E.M.Randles, E.G.Aboagye, A.K.Thompson, J.R.Ramirez-Alvarado, M.

(2008) J.Biol.Chem. 283: 30950-30956

  • DOI: 10.1074/jbc.M804822200
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Mechanisms of amyloidogenesis are not well understood, including potential structural contributions of mutations in the process. Our previous research indicated that the dimer interface of amyloidogenic immunoglobulin light chain protein AL-09 is twi ...

    Mechanisms of amyloidogenesis are not well understood, including potential structural contributions of mutations in the process. Our previous research indicated that the dimer interface of amyloidogenic immunoglobulin light chain protein AL-09 is twisted 90 degrees relative to the protein from its germline sequence, kappaI O18/O8. Here we report a systematic restoration of AL-09 to its germline sequence by mutating the non-conservative somatic mutations located in the light chain dimer interface. Among these mutants, we find a correlation between increased thermodynamic stability and an increase in the lag time for fibril formation. The restorative mutant AL-09 H87Y completes the trifecta and restores the dimer interface observed in kappaI O18/O8, emphasizing the potential importance of the structural integrity of these proteins to protect against amyloidogenicity. We also find that adding amyloidogenic mutations into the germline protein illustrates mutational cooperativity in promoting amyloidogenesis.


    Organizational Affiliation

    Department of Biochemistry, College of Medicine, Mayo Clinic, Rochester, Minnesota 55905, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Light Chain Amyloidogenic
A, B
109Homo sapiensMutation(s): 0 
Gene Names: IGKV1-33
Find proteins for P01594 (Homo sapiens)
Go to UniProtKB:  P01594
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.189 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 73.832α = 90.00
b = 73.829β = 90.00
c = 97.541γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
CrystalCleardata collection
CrystalCleardata scaling
REFMACrefinement
CrystalCleardata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-09-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance