Table 2 Binding affinities of 120 VEPs from SARS-CoV-2 with HLA-A allotypes as detected by competitive peptide binding assays using transfected HMy2.CIR cell lines

From: Screening HLA-A-restricted T cell epitopes of SARS-CoV-2 and the induction of CD8⁺ T cell responses in HLA-A transgenic mice

HLA-A	Epitope	Affinity	5 μM inhibition (%)	15 μM inhibition (%)	Epitope	Affinity	5 μM inhibition (%)	15 μM inhibition (%)
A0201	R12	High	91.70	91.10	R6	No	13.40	23.70
	R8	High	85.50	89.90	D5	Low	10.00	37.80
	B1	High	80	88.20	A5	No	9.40	6.20
	R10	High	75.80	92.80	R13	No	8.66	28.90
	R15	High	70.80	93.80	D80	No	6.38	5.25
	B3	High	66.10	74.40	D42	No	5.93	6.72
	R9	High	64.80	89.50	D72	No	5.93	6.38
	R5	High	58.70	89.10	A4	No	4.80	4.00
	R11	Inter	47.80	86.40	R14	No	4.50	13.30
	B2	Inter	42.10	83.70	A1	No	3.30	2.90
	R4	Inter	40.40	78.30	A3	No	1.90	1.40
	B6	Inter	33.00	65.90	D13	No	0.70	1.20
	D2	Inter	24.50	55.00	C1	No	0	10.30
	D12	Low	20.10	32.60	C3	No	0	7.10
	B4	No	16.70	20.70	D6	No	0	2.10
A1101	D38	High	80.70	87.70	D48	Low	34.38	48.05
	D41	High	80.38	89.72	D50	Low	32.38	43.38
	R43	High	79.50	89.20	B23	Low	32.30	41.00
	R32	High	73.90	89.40	R41	Low	31.90	46.20
	R30	High	72.60	84.90	B18	Low	21.55	34.38
	D34	High	67.70	84.70	D82	Low	20.72	38.22
	B20	High	61.88	55.88	A16	No	18.38	19.22
	D72	High	58.05	76.05	D77	No	15.72	29.38
	D40	High	56.70	82.60	D42	Low	14.70	47.80
	D47	High	53.38	67.72	A12	No	14.38	15.00
	R42	High	50.20	75.20	R38	Low	12.10	47.10
	R44	Inter	47.60	81.4	B21	No	10.55	29.38
	C49	Inter	47.38	74.22	D79	No	10.22	25.22
	D81	Inter	0.4238	52.22	R34	No	10.00	25.90
	D46	Inter	34.38	52.22	D80	No	4.22	5.55
	R40	Inter	30.70	67.10	A19	No	0.20	2.60
	C27	Inter	28.00	54.40	A18	No	0	4.00
	R39	Inter	23.70	53.60
	R35	Inter	22.50	52.30
A3303	D80	High	86.40	97.40	B23	Low	21.26	34.07
	D76	High	75.40	94.20	B21	Low	20.36	46.43
	R34	High	72.50	91.00	R38	Low	18.79	42.61
	D77	High	64.20	81.80	D53	Low	14.94	35.87
	R43	High	60.81	65.75	D48	Low	13.39	43.28
	D82	High	49.40	75.90	C46	Low	10.90	42.80
	B34	Inter	41.26	54.29	A18	No	8.90	11.15
	D79	Inter	33.10	62.70	B35	Low	8.10	41.40
	D81	Inter	16.00	74.00	B20	No	7.10	14.74
	C47	Inter	9.90	60.20	A12	No	6.65	0.00
	R41	Inter	8.00	51.15	D78	No	3.30	20.30
	A16	Low	42.61	46.43	C45	No	0.00	29.10
A0203	D30	High	82.80	91.80	B16	Low	38.10	38.00
	R24	High	61.30	78.80	D17	Low	21.83	43.31
	B17	High	57.00	70.50	C3	No	11.44	28.39
	B15	High	50	54.00	B6	Low	6.43	46.41
	D5	High	70.87	83.76	R6	No	5.84	8.10
	R5	High	60.37	81.49	A4	No	4.64	8.94
	R9	High	59.30	81.61	A5	No	5.24	11.09
	D2	High	53.45	55.36	D81	No	4.64	6.79
	B2	High	51.90	68.84	D78	No	3.93	3.21
	D33	Inter	42.30	81.20	D31	No	0	14.80
	B1	Inter	37.82	57.74	A10	No	0	0
	R14	Inter	37.10	65.74	D32	No	0	0
	D13	Inter	25.29	55.48
	C17	Inter	21.70	51.30
	C1	Inter	20.39	54.54
A0206	D26	High	52.30	68.10	C10	Low	17.08	31.68
	R23	Inter	39.30	50.10	D12	No	17.08	29.07
	B3	Inter	42.63	57.11	A1	No	16.30	16.95
	D2	Inter	41.72	63.49	C1	No	15.91	21.77
	B1	Inter	41.20	60.37	A6	No	15.51	13.30
	B2	Inter	37.29	54.89	R6	No	14.73	18.64
	D33	Inter	35.72	68.19	C16	No	12.65	13.69
	R9	Inter	30.12	73.53	C3	No	12.65	13.30
	C12	Low	19.43	36.25	D42	No	9.26	12.78
	B4	No	18.77	14.34	D78	No	8.47	8.34
	B11	Low	18.30	43.40	A9	No	0	10.20
	B12	Low	17.00	32.60
A2402	B30	High	88.65	91.49	B28	No	18.00	28.20
	R47	High	88.50	88.70	A22	No	10.70	29.30
	B26	High	83.60	82.60	D52	No	6.25	24.78
	B31	High	81.10	86.30	A1	No	5.60	7.20
	D55	High	73.07	78.50	A20	No	5.30	21.30
	B29	High	70.10	74.90	C35	No	2.80	10.10
	D53	High	59.85	62.21	A23	No	1.20	1.20
	R48	Inter	40.10	51.00	A19	No	0.00	0.00
	D62	Inter	37.53	75.19	A21	No	0.00	0.00
	D64	Inter	35.05	69.41	D79	No	0.00	0.00
	D56	Low	30.21	45.80
A0207	A7	High	68.52	69.58	R6	Low	35.22	48.64
	B2	High	63.58	64.64	D72	Low	32.87	41.69
	R17	High	57.11	62.75	D80	Low	20.64	47.93
	B6	High	56.40	60.87	D79	No	18.75	29.58
	A6	High	54.99	62.05	D17	No	16.40	21.11
	B3	High	54.99	63.34	D5	Low	11.46	44.64
	A1	Inter	45.22	50.16	B10	No	2.40	0.00
	D6	Low	46.40	48.05	D12	No	0.00	0.00
	A4	Low	36.40	40.40
A3001	D65	High	75.62	79.92	D72	Inter	44.70	62.45
	D71	High	72.12	65.13	R34	Inter	31.53	54.11
	B40	High	63.52	72.12	R40	Low	38.25	29.92
	B41	High	60.30	60.30	A26	Low	37.18	18.90
	B36	High	60.03	73.20	D40	Low	36.91	42.55
	B37	High	54.11	60.03	A25	Low	20.51	33.15
	B38	Inter	49.54	61.91	A18	Low	15.94	35.83
	R39	Inter	46.05	55.46

Binding affinity of the epitope peptide with indicated HLA-A allotype was assessed by IC50 value, which is the concentration of unlabeled competitor peptide required to inhibit the binding of fluorescently labeled reference peptide by 50%. IC50 < 5 μM (5 μM inhibition >50%) means high binding affinity; 5 μM < IC50 < 15 μM (5 μM inhibition < 50% but 15 μM inhibition > 50%) means intermediate binding affinity; IC50 > 15 μM means low or no binding affinity (5 μM inhibition 20–50% or 15 μM inhibition 30–50% means low binding affinity and 5 μM inhibition < 20% or 15 μM inhibition < 30% means no binding affinity)

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Table 2 Binding affinities of 120 VEPs from SARS-CoV-2 with HLA-A allotypes as detected by competitive peptide binding assays using transfected HMy2.CIR cell lines

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