Table 1 MiHAs detected by MS in only one of the two subjects and resulting from ns-SNPs in MIP-coding regions.

From: Impact of genomic polymorphisms on the repertoire of human MHC class I-associated peptides

MiHA name

Detected MiHA sequence

S

Gene symbol

HLA allele

IC 50 (nM)

aa sub.1

aa sub.2

Alternative MiHA variant

IC 50 (nM)

IC 50 ratio

dbSNP

(A)

           

 ITGAL-1T*

STALRLTAF

1

ITGAL

C*16:01

306

TR

RR

SRALRLTAF

2,969

9.7

rs2230433

 IGHV5-51-1V

VIYPGDSDTRY

1

IGHV5-51

A*29:02

27

VI

SS

I/SIYPGDSDTRY

19/31

0.7/1.1

rs199610746

 NQO1-1R*

AMYDKGPFRSK

2

NQO1

A*03:01

12

WW

RW

AMYDKGPFWSK

11

0.9

rs1131341

 GRP-1R

RELPLVLL

2

GRP

B*44:03

285

SS

RR

SELPLVLL

159

0.6

rs1062557

 C13orf18-1R*

RVSLPTSPR

2

C13orf18

A*03:01

235

GG

RR

RVSLPTSPG

11,858

50.5

rs1408184

 IGLV2-11-1HH*

SDVGGHHY

2

IGLV2-11

A*29:02

660

YY-NN

HH-HH

SDVGGYNY

412

0.6

—

(B)

           

 R3HCC1-1H

AENDFVHRI

1

R3HCC1

B*44:03

61

HH

HR

AENDFVRRI

123

2

rs11546682

 NADK-1K

AVHNGLGEK

2

NADK

A*03:01

229

KN

KK

AVHNGLGEN

24,349

106.3

rs4751

 ACC-2G

KEFEDGIINW

2

BCL2A1

B*44:03

49

GD

GG

KEFEDDIINW

59

1.2

rs3826007

 KIF20B-1I

QELETSIKKI

2

KIF20B

B*44:03

288

IN

II

QELETSNKKI

615

2.1

rs12572012

  1. HLA, human leukocute antigen.
  2. All MiHAs have one single genetic origin and are coded by an unshared (A) or shared allele (B) between subjects. Selected features of the MiHAs are shown: the detected amino-acid sequence (polymorphic residues are highlighted in bold underlined), the subject (S) in which the MiHA was detected, the source gene, the HLA molecule for which the MiHA has the best predicted binding affinity (IC50), the translated genotype of the polymorphic loci shown in amino acids (aa) for each subject, the alternative MiHA variant and its predicted HLA-binding affinity (IC50), the differential predicted HLA-binding affinity of the variant relative to the detected peptide (IC50 ratio) and the dbSNP identification when the ns-SNP corresponds to a known SNP. IC50 values of the alternative MiHA variants and IC50 ratios are shown in italics when they show a fold difference ≥2 relative to the detected MiHAs. Further features can be found in Supplementary Data 3.
  3. *MiHAs tested in cytotoxicity assays (see Fig. 5a).
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