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Fig. 2 | BMC Medical Genomics

Fig. 2

From: Elevated neoantigen levels in tumors with somatic mutations in the HLA-A, HLA-B, HLA-C and B2M genes

Fig. 2

Mutational analysis of MHC-I complex. a Pie charts displaying percentages of types of mutation for the B2M protein; and for the combined HLA-A, HLA-B and HLA-C proteins, respectively, across all TCGA patients. b Distribution of nonsynonymous mutation counts, obtained from Polysolver, for HLA-A, HLA-B, and HLA-C proteins, across functional domains. The corresponding functional domains of HLA proteins are shown at the bottom. The UniProt sequential residue numbering scheme is used for residue numbering, which requires subtraction of the signal peptide (24 residues) for mapping to the IMGT/HLA residue numbering scheme. On the right, 3D crystal structures of MHC-I complex are displayed as B2M and HLA-A complex (PDB: 3bo8), as B2M and HLA-B complex (PDB: 3b3i), and as B2M and HLA-C complex (PDB: 4 nt6). Purple ribbons indicate B2M protein, while blue ribbons indicate the HLA proteins. The highlighted purple and blue residues correspond to the interface regions of B2M and HLA proteins, respectively. Hotspot mutations for HLA proteins (frequency > 3 for HLA-A, frequency > 3 for HLA-B, and frequency > 1 for HLA-C) are highlighted as green, red, tan and gray indicating interface, core, surface, and ambiguous residues, respectively. c Distribution of nonsynonymous mutation counts across the entire B2M protein. On the bottom of the plot, all amino acid residues of B2M protein are colored based on their 3D location: interface, core, surface, or ambiguous

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