1G0X | pdb_00001g0x

CRYSTAL STRUCTURE OF THE LIGAND BINDING DOMAIN OF LIR-1 (ILT2)

• PDB DOI: https://doi.org/10.2210/pdb1G0X/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-10-09 Released: 2001-01-17 
• Deposition Author(s): Chapman, T.L., Heikema, A.P., West Jr., A.P., Bjorkman, P.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.244 (Depositor) 
• R-Value Work: 
  0.214 (Depositor) 
• R-Value Observed: 
  0.214 (Depositor) 

Literature

Crystal structure and ligand binding properties of the D1D2 region of the inhibitory receptor LIR-1 (ILT2).

Chapman, T.L., Heikema, A.P., West Jr., A.P., Bjorkman, P.J.

(2000) Immunity 13: 727-736

• PubMed: 11114384 
• DOI: https://doi.org/10.1016/s1074-7613(00)00071-6
• Primary Citation Related Structures: 
  1G0X


• PubMed Abstract: 
  

  LIR-1 is an inhibitory receptor that recognizes class I MHC molecules and the human cytomegalovirus class I homolog UL18. Here, we report the 2.1 A resolution crystal structure of the ligand binding portion of LIR-1 (domains 1 and 2 [D1D2]) and localize the binding region for UL18. LIR-1 D1D2 is composed of two immunoglobulin-like domains arranged at an acute angle to form a bent structure resembling the structures of natural killer inhibitory receptors (KIRs). The LIR-1 binding site comprises a portion of D1 distant from the interdomain hinge region that constitutes the KIR binding site, consistent with differences in LIR-1 and KIR recognition properties and functions.

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Organizational Affiliation: 
• Division of Biology 156-29, California Institute of Technology, Pasadena, CA 91125, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 22 kDa 
• Atom Count: 1,757 
• Modeled Residue Count: 192 
• Deposited Residue Count: 197 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LEUCOCYTE IMMUNOGLOBULIN-LIKE RECEPTOR-1	A	197	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q8NHL6 (Homo sapiens) Explore Q8NHL6  Go to UniProtKB:  Q8NHL6
PHAROS:  Q8NHL6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.244 (Depositor) 
• R-Value Work:  0.214 (Depositor) 
• R-Value Observed: 0.214 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.258	α = 90
b = 68.258	β = 90
c = 129.734	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2001-01-17 
Deposition Author(s): Chapman, T.L., Heikema, A.P., West Jr., A.P., Bjorkman, P.J.

Revision History  

• Version 1.0: 2001-01-17
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-11-06
  Changes: Data collection, Database references, Structure summary