Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 45.65 kDa 
• Atom Count: 3534 
• Modelled Residue Count: 416 
• Deposited Residue Count: 416 
• Unique protein chains: 1

2O6S

Structural diversity of the hagfish Variable Lymphocyte Receptors B59

• PDB DOI: 10.2210/pdb2O6S/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Eptatretus burgeri
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2006-12-08 Released: 2006-12-26 
• Deposition Author(s): Lee, J.O., Kim, H.M., Oh, S.C.

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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 

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

• PubMed: 17192264 
• 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. 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.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Variable lymphocyte receptor B	A, B	208	Eptatretus burgeri	Mutation(s): 0  Gene Names: VLRB
UniProt
Find proteins for Q4G1L3 (Eptatretus burgeri) Explore Q4G1L3  Go to UniProtKB:  Q4G1L3

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 = 30.657	α = 69.21
b = 50.027	β = 76.99
c = 69.642	γ = 86.12

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
MOSFLM	data reduction
SCALEPACK	data scaling
PHASES	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-12-08 
• Released Date: 2006-12-26 
Deposition Author(s): Lee, J.O., Kim, H.M., Oh, S.C.

Revision History  

• 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