PDBsum entry 5vue

Immune system

PDB id: 5vue

Contents

Protein chains

276 a.a.

97 a.a.

Ligands

LEU-THR-VAL-GLN-VAL-ALA-ARG-VAL-TRP

Waters ×533

PDB id:

5vue

Name:

Immune system

Title:

Hla-b 57:01 Presenting ltvqvarvw

Structure:

Hla class i histocompatibility antigen, b-57 alpha chain. Chain: a. Synonym: bw-57,mhc class i antigen b 57. Engineered: yes. Beta-2-microglobulin. Chain: b. Engineered: yes. Nonamer peptide: leu-thr-val-gln-val-ala-arg-val-trp. Chain: c.

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: hla-b, hlab. Expressed in: escherichia coli. Expression_system_taxid: 511693. Gene: b2m, cdabp0092, hdcma22p. Synthetic: yes. Synthetic construct.

Resolution:

1.80Å R-factor: 0.168 R-free: 0.207

Authors:

P.Pymm,J.Rossjohn,J.P.Vivian

Key ref:

P.T.Illing et al. (2018). HLA-B57 micropolymorphism defines the sequence and conformational breadth of the immunopeptidome. Nat Commun, 9, 4693. PubMed id: 30410026 DOI: 10.1038/s41467-018-07109-w

Date:

19-May-17 Release date: 03-Oct-18

Protein chain

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

Seq: 362 a.a.

Struc: 276 a.a.*

Protein chain

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

Seq: 119 a.a.

Struc: 97 a.a.

* PDB and UniProt seqs differ at 28 residue positions (black crosses)

DOI no: 10.1038/s41467-018-07109-w

Nat Commun 9:4693 (2018)

PubMed id: 30410026

HLA-B57 micropolymorphism defines the sequence and conformational breadth of the immunopeptidome.

P.T.Illing, P.Pymm, N.P.Croft, H.G.Hilton, V.Jojic, A.S.Han, J.L.Mendoza, N.A.Mifsud, N.L.Dudek, J.McCluskey, P.Parham, J.Rossjohn, J.P.Vivian, A.W.Purcell.

ABSTRACT

Immunophenotypic differences between closely related human leukocyte antigen (HLA) alleles have been associated with divergent clinical outcomes in infection, autoimmunity, transplantation and drug hypersensitivity. Here we explore the impact of micropolymorphism on peptide antigen presentation by three closely related HLA molecules, HLA-B*57:01, HLA-B*57:03 and HLA-B*58:01, that are differentially associated with the HIV elite controller phenotype and adverse drug reactions. For each allotype, we mine HLA ligand data sets derived from the same parental cell proteome to define qualitative differences in peptide presentation using classical peptide binding motifs and an unbiased statistical approach. The peptide repertoires show marked qualitative overlap, with 982 peptides presented by all allomorphs. However, differences in peptide abundance, HLA-peptide stability, and HLA-bound conformation demonstrate that HLA micropolymorphism impacts more than simply the range of peptide ligands. These differences provide grounds for distinct immune reactivity and insights into the capacity of micropolymorphism to diversify immune outcomes.