2O6S

Structural diversity of the hagfish Variable Lymphocyte Receptors B59


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.194 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural diversity of the hagfish variable lymphocyte receptors

Kim, H.M.Oh, S.C.Lim, K.J.Kasamatsu, J.Heo, J.Y.Park, B.S.Lee, H.Yoo, O.J.Kasahara, M.Lee, J.O.

(2007) J Biol Chem 282: 6726-6732

  • DOI: 10.1074/jbc.M608471200
  • Primary Citation of Related Structures:  
    2O6Q, 2O6R, 2O6S

  • PubMed Abstract: 
  • Variable lymphocyte receptors (VLRs) are recently discovered leucine-rich repeat (LRR) family proteins that mediate adaptive immune responses in jawless fish. Phylogenetically it is the oldest adaptive immune receptor and the first one with a non-immunoglobulin fold ...

    Variable lymphocyte receptors (VLRs) are recently discovered leucine-rich repeat (LRR) family proteins that mediate adaptive immune responses in jawless fish. Phylogenetically it is the oldest adaptive immune receptor and the first one with a non-immunoglobulin fold. We present the crystal structures of one VLR-A and two VLR-B clones from the inshore hagfish. The hagfish VLRs have the characteristic horseshoe-shaped structure of LRR family proteins. The backbone structures of their LRR modules are highly homologous, and the sequence variation is concentrated on the concave surface of the protein. The conservation of key residues suggests that our structures are likely to represent the LRR structures of the entire repertoire of jawless fish VLRs. The analysis of sequence variability, prediction of protein interaction surfaces, amino acid composition analysis, and structural comparison with other LRR proteins suggest that the hypervariable concave surface is the most probable antigen binding site of the VLR.


    Organizational Affiliation

    Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon, Korea.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Variable lymphocyte receptor BA, B208Eptatretus burgeriMutation(s): 0 
Gene Names: VLRB
UniProt
Find proteins for Q4G1L3 (Eptatretus burgeri)
Explore Q4G1L3 
Go to UniProtKB:  Q4G1L3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4G1L3
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.194 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 30.657α = 69.21
b = 50.027β = 76.99
c = 69.642γ = 86.12
Software Package:
Software NamePurpose
CNSrefinement
ADSCdata collection
MOSFLMdata reduction
SCALEPACKdata scaling
PHASESphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2006-12-26
    Type: Initial release
  • Version 1.1: 2007-12-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance