Biological Assembly 1  

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - ABC 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 66691.32 
• Atom Count: 4498 
• Residue Count: 581 
• Unique protein chains: 4

1P7Q

Crystal Structure of HLA-A2 Bound to LIR-1, a Host and Viral MHC Receptor

• DOI: 10.2210/pdb1P7Q/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Human immunodeficiency virus type 1 group M subtype D (isolate Z2/CDC-Z34), Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2003-05-05 Released: 2003-10-14 
• Deposition Author(s): Willcox, B.E., Thomas, L.M., Bjorkman, P.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.4 Å
• R-Value Free: 0.309 
• R-Value Work: 0.218 

Literature

Crystal structure of HLA-A2 bound to LIR-1, a host and viral major histocompatibility complex receptor.

Willcox, B.E., Thomas, L.M., Bjorkman, P.J.

(2003) Nat.Immunol. 4: 913-919

• PubMed: 12897781 
• DOI: 10.1038/ni961


• PubMed Abstract: 
  

Leukocyte immunoglobulin-like receptor 1 (LIR-1), an inhibitory receptor expressed on monocytes, dendritic cells and lymphocytes, regulates cellular function by binding a broad range of classical and nonclassical major histocompatibility complex (MHC) class I molecules, and the human cytomegalovirus MHC class I homolog UL18. Here we describe the 3.4-A crystal structure of a complex between the LIR-1 D1D2 domains and the MHC class I molecule HLA-A2. LIR-1 contacts the mostly conserved beta(2)-microglobulin and alpha3 domains of HLA-A2. The LIR-1 binding site comprises residues at the interdomain hinge, and a patch at the D1 tip. The structure shows how LIR-1 recognizes UL18 and diverse MHC class I molecules, and indicates that a similar mode of MHC class I recognition is used by other LIR family members.

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Organizational Affiliation: 

Division of Biology 114-96, California Institute of Technology, Pasadena, California 91125, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
HLA class I histocompatibility antigen, A-2 alpha chain	A	276	Homo sapiens	Mutation(s): 0  Gene Names: HLA-A (HLAA)
Find proteins for P04439 (Homo sapiens) Go to Gene View: HLA-A Go to UniProtKB:  P04439

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Beta-2-microglobulin	B	99	Homo sapiens	Mutation(s): 0  Gene Names: B2M
Find proteins for P61769 (Homo sapiens) Go to Gene View: B2M Go to UniProtKB:  P61769

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
POL polyprotein	C	9	Human immunodeficiency virus type 1 group M subtype D (isolate Z2/CDC-Z34)	Mutation(s): 0  Gene Names: gag-pol
Find proteins for P12499 (Human immunodeficiency virus type 1 group M subtype D (isolate Z2/CDC-Z34)) Go to UniProtKB:  P12499

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
leukocyte immunoglobulin-like receptor 1	D	197	Homo sapiens	Mutation(s): 0  Gene Names: LILRB1 (ILT2, LIR1, MIR7)
Find proteins for Q8NHL6 (Homo sapiens) Go to Gene View: LILRB1 Go to UniProtKB:  Q8NHL6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.4 Å
• R-Value Free: 0.309 
• R-Value Work: 0.218 
• Space Group: P 3₁ 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 113.740	α = 90.00
b = 113.740	β = 90.00
c = 89.460	γ = 120.00

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
AMoRE	phasing
HKL-2000	data reduction
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2003-05-05 
• Released Date: 2003-10-14 
• Deposition Author(s): Willcox, B.E., Thomas, L.M., Bjorkman, P.J.

Revision History 

• Version 1.0: 2003-10-14
  Type: Initial release
• Version 1.1: 2008-04-29
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance