2R9U

Crystal Structure of Lamprey Variable Lymphocyte Receptor 2913 Ectodomain

• PDB DOI: https://doi.org/10.2210/pdb2R9U/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Petromyzon marinus
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2007-09-13 Released: 2009-03-10 
• Deposition Author(s): Han, B.W., Herrin, B.R., Choe, J., Cooper, M.D., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.264 
• R-Value Work: 0.217 
• R-Value Observed: 0.220 

Starting Model: experimental

Literature

Crystal Structure of Lamprey Variable Lymphocyte Receptor 2913 Ectodomain.

Han, B.W., Herrin, B.R., Morris, G.M., Choe, J., Cooper, M.D., Wilson, I.A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 generated by PISA (software)

Biological Assembly 4  

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

Biological assembly 4 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 77.96 kDa 
• Atom Count: 5,831 
• Modelled Residue Count: 696 
• Deposited Residue Count: 696 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Variable lymphocyte receptor	A, B, C, D	174	Petromyzon marinus	Mutation(s): 0
UniProt
Find proteins for Q6E4B4 (Petromyzon marinus) Explore Q6E4B4  Go to UniProtKB:  Q6E4B4

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.264 
• R-Value Work: 0.217 
• R-Value Observed: 0.220 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.109	α = 90
b = 61.057	β = 107.35
c = 98.081	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
Blu-Ice	data collection
MOSFLM	data reduction
HKL-2000	data reduction
HKL-2000	data scaling
CaspR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-03-10 
Deposition Author(s): Han, B.W., Herrin, B.R., Choe, J., Cooper, M.D., Wilson, I.A.

Revision History  

• Version 1.0: 2009-03-10
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2023-08-30
  Changes: Data collection, Database references, Refinement description
• Version 1.3: 2024-10-16
  Changes: Structure summary