PDBsum entry 5b38

Immune system

PDB id: 5b38

Contents

Protein chains

275 a.a.

99 a.a.

273 a.a.

Ligands

LEU-SER-SER-PRO-VAL-THR-LYS-SER-PHE

NAG ×3

Waters ×235

PDB id:

5b38

Name:

Immune system

Title:

Kir3dl1 005 In complex with hla-b 57:01

Structure:

Hla class i histocompatibility antigen, b-57 alpha chain. Chain: a. Fragment: unp residues 25-300. Synonym: hla-b 57:01,Bw-57,mhc class i antigen b 57. Engineered: yes. Beta-2-microglobulin. Chain: b. Engineered: yes. Peptide from ig kappa chain c region.

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: hla-b, hlab. Expressed in: enterobacteria phage l1. Expression_system_taxid: 268588. Gene: b2m, cdabp0092, hdcma22p. Synthetic: yes. Gene: kir3dl1, cd158e, nkat3, nkb1.

Resolution:

2.30Å R-factor: 0.198 R-free: 0.251

Authors:

J.P.Vivian,J.Rossjohn

Key ref:

P.M.Saunders et al. (2016). Killer cell immunoglobulin-like receptor 3DL1 polymorphism defines distinct hierarchies of HLA class I recognition. J Exp Med, 213, 791-807. PubMed id: 27045007 DOI: 10.1084/jem.20152023

Date:

12-Feb-16 Release date: 30-Mar-16

Protein chain

P01889  (1B07_HUMAN) -  HLA class I histocompatibility antigen, B alpha chain from Homo sapiens

Seq: 362 a.a.

Struc: 275 a.a.*

Protein chain

P61769  (B2MG_HUMAN) -  Beta-2-microglobulin from Homo sapiens

Seq: 119 a.a.

Struc: 99 a.a.

Protein chain

P43629  (KI3L1_HUMAN) -  Killer cell immunoglobulin-like receptor 3DL1 from Homo sapiens

Seq: 444 a.a.

Struc: 273 a.a.*

* PDB and UniProt seqs differ at 30 residue positions (black crosses)

DOI no: 10.1084/jem.20152023

J Exp Med 213:791-807 (2016)

PubMed id: 27045007

Killer cell immunoglobulin-like receptor 3DL1 polymorphism defines distinct hierarchies of HLA class I recognition.

P.M.Saunders, P.Pymm, G.Pietra, V.A.Hughes, C.Hitchen, G.M.O'Connor, F.Loiacono, J.Widjaja, D.A.Price, M.Falco, M.C.Mingari, L.Moretta, D.W.McVicar, J.Rossjohn, A.G.Brooks, J.P.Vivian.

ABSTRACT

Natural killer (NK) cells play a key role in immunity, but how HLA class I (HLA-I) and killer cell immunoglobulin-like receptor 3DL1 (KIR3DL1) polymorphism impacts disease outcome remains unclear. KIR3DL1 (*001/*005/*015) tetramers were screened for reactivity against a panel of HLA-I molecules. This revealed different and distinct hierarchies of specificity for each KIR3DL1 allotype, with KIR3DL1*005 recognizing the widest array of HLA-I ligands. These differences were further reflected in functional studies using NK clones expressing these specific KIR3DL1 allotypes. Unexpectedly, the Ile/Thr80 dimorphism in the Bw4-motif did not categorically define strong/weak KIR3DL1 recognition. Although the KIR3DL1*001, *005, and *015 polymorphisms are remote from the KIR3DL1-HLA-I interface, the structures of these three KIR3DL1-HLA-I complexes showed that the broader HLA-I specificity of KIR3DL1*005 correlated with an altered KIR3DL1*005 interdomain positioning and increased mobility within its ligand-binding site. Collectively, we provide a generic framework for understanding the impact of KIR3DL1 polymorphism on the recognition of HLA-I allomorphs.