Table 5.

Dominant SARS-CoV T Cell Epitopes

SARS			SARS-CoV-2
Sequence	RF Score	HLA Restrictiona	Sequence	Protein	Mapped Start–End	Identity (%)
VRGWVFGSTMNNKSQSVI	0.15	DRB1∗04:01	IRGWIFGTTLDSKTQSLL	S	101–118	50
CTFEYISDAFSLD	0.21	DRB1∗04:01	CTFEYVSQPFLMD	S	166–178	62
DAFSLDVSEKSGN	0.62	DRB1∗04:01	QPFLMDLEGKQGN	S	173–185	38
TNFRAILTAFSPAQDIW	0.32	DRB1∗04:01	TRFQTLLALHRSYLTPGDSSSGW	S	236–258	17
KSFEIDKGIYQTSNFRVV	0.40	DRB1∗04:01, DRB1∗07:01	KSFTVEKGIYQTSNFRVQ	S	304–321	78
STFFSTFKCYGVSATKL	0.50	DRB1∗07:01, DR8	SASFSTFKCYGVSPTKL	S	371–387	82
KLPDDFMGCV	0.55	A∗02:01	KLPDDFTGCV	S	424–433	90
NIDATSTGNYNYKYRYLR	0.29	Class II	NLDSKVGGNYNYLYRLFR	S	440–457	56
YLRHGKLRPFERDISNVP	0.16	DRB1∗04:01	YLYRLFRKSNLKPFERDI	S	451–468	58
RPFERDISNVPFS	0.36	DRB1∗04:01	KPFERDISTEIYQ	S	462–474	54
KSIVAYTMSLGADSSIAY	0.15	DRB1∗04:01, DRB1∗07:01	QSIIAYTMSLGAENSVAY	S	690–707	72
SIVAYTMSL	0.29	A∗02:01	SIIAYTMSL	S	691–699	89
TECANLLLQYGSFCTQL	0.50	DR8	TECSNLLLQYGSFCTQL	S	747–763	94
VKQMYKTPTLKYFGGFNF	0.20	DRB1∗04:01	VKQIYKTPPIKDFGGFNF	S	785–802	78
ESLTTTSTALGKLQDVV	0.42	DRB1∗04:01	DSLSSTASALGKLQDVV	S	936–952	71
ALNTLVKQL	0.29	A∗02:01	ALNTLVKQL	S	958–966	100
VLNDILSRL	0.29	A∗02:01	VLNDILSRL	S	976–984	100
LITGRLQSL	0.42	A∗02:01	LITGRLQSL	S	996–1004	100
QLIRAAEIRASANLAATK	0.20	DRB1∗04:01	QLIRAAEIRASANLAATK	S	1011–1028	100
SWFITQRNFFSPQII	0.60	DRB1∗04:01	HWFVTQRNFYEPQII	S	1101–1115	73
RLNEVAKNL	0.42	A∗02:01	RLNEVAKNL	S	1185–1193	100
NLNESLIDL	0.29	A∗02:01	NLNESLIDL	S	1192–1200	100
FIAGLIAIV	0.80	A∗02:01	FIAGLIAIV	S	1220–1228	100
RFFTLGSITAQPVKI	0.18	B∗58:01	RIFTIGTVTLKQGEI	Orf 3a	6–20	40
SITAQPVKI	0.29	B∗58:01	TVTLKQGEI	Orf 3a	12–20	22
TLACFVLAAV	0.59	A∗02:01	TLACFVLAAV	M	61–70	100
GLMWLSYFV	0.59	A∗02:01	GLMWLSYFI	M	89–97	89
HLRMAGHSL	0.40	Class I	HLRIAGHHL	M	148–156	78
ALNTPKDHI	0.29	A∗02:01	ALNTPKDHI	N	138–146	100
LQLPQGTTL	0.29	A∗02:01	LQLPQGTTL	N	159–167	100
GETALALLLL	0.38	B∗40:01	GDAALALLLL	N	215–224	80
LALLLLDRL	0.29	A∗02:01	LALLLLDRL	N	219–227	100
LLLDRLNQL	0.42	A∗02:01	LLLDRLNQL	N	222–230	100
RLNQLESKV	0.42	A∗02:01	RLNQLESKM	N	226–234	89
TKQYNVTQAF	0.29	Class I	TKAYNVTQAF	N	265–274	90
GMSRIGMEV	0.42	A∗02:01	GMSRIGMEV	N	316–324	100
MEVTPSGTWL	0.42	B∗40:01	MEVTPSGTWL	N	322–331	100
QFKDNVILL	0.50	A∗24:02	NFKDQVILL	N	345–353	78
CLDAGINYV	0.42	A∗02:01	CLEASFNYL	Orf 1ab	2139–2147	56
WLMWFIISI	0.42	A∗02:01	WLMWLIINL	Orf 1ab	2292–2300	67
ILLLDQVLV	0.42	A∗02:01	ILLLDQALV	Orf 1ab	2498–2506	89
LLCVLAALV	0.42	A∗02:01	SACVLAAEC	Orf 1ab	2840–2848	56
ALSGVFCGV	0.42	A∗02:01	SLPGVFCGV	Orf 1ab	2942–2950	78
TLMNVITLV	0.42	A∗02:01	TLMNVLTLV	Orf 1ab	3639–3647	89
SMWALVISV	0.42	A∗02:01	SMWALIISV	Orf 1ab	3661-3669	89

S, surface glycoprotein; M, membrane protein; N, nucleocapsid phosphoprotein.

^aRestrictions defined only in HLA-transgenic mice are indicated by the italicized font.