TABLE 1.

Whole-proteome screen with PBMC from the two subjects^a

Sequence	Positions in HXB2	HIV-1 protein	IFN-γ response magnitude (SFC/106 PBMC)	Sequence polymorphism(s)
				Progressor	ES9
ES9
ASRELERFAVNPGLL	37-51	Gag	65
KAFSPEVIPMF	162-172	Gag	600	A163N	A163S
PVGEIYKRWIILGLN	257-271	Gag	75		N271H
IYKRWIILGLNKIVR	261-275	Gag	3,075		N271H
FRDYVDRFYKTLRAE	293-307	Gag	70
YKTLRAEQASQEVKN	301-315	Gag	130
DCKTILKALGPAATL	329-343	Gag	55
KEGHIAKNCRAPRKK	397-411	Gag	130	K411R	K411R
IAKNCRAPRKKGCWK	401-415	Gag	170	K411R	K411R
QEEEEVGFPVRPQVP	61-75	Nef	75	65-E insertion
YKAAVDLSHFLKEKG	81-95	Nef	410	A83G, V85L	A83G, V85L
TQGYFPDWQNYTPGP	117-131	Nef	75
LSPRTLNAW*	147-155	Gag	<30
KSFSPEVIPMF*	162-172	Gag	520
TSNLQEQIAW*	240-249	Gag	<30
Progressor
QMVHQAISPRTLNAW	141-155	Gag	110	A146P, I147L	A146P, I147L
IVRMYSPTSILDIRQ	273-287	Gag	60	R286K	R286K
RQANFLGKIWPSHKG	429-443	Gag	75		H441Y
FLGKIWPSHKGRPGN	433-447	Gag	80		H441Y
WIILGLNKIVRMYSP	265-279	Gag	60		N271H
FRDYVDRFYKTLRAE	293-307	Gag	70
EAVQKIATESIVIWG	525-539	Pol	165		I530V, A531T, V536I
KIATESIVIWGKTPK	529-543	Pol	135	K540R, T541I	I530V, A531T, V536I, T541I
IVGAETFYVDGAANR	589-603	Pol	385	V590I	V590I
ETFYVDGAANRETKL	593-607	Pol	295		K606R
QKQITKIQNFRVYYR	929-943	Pol	70
LEWKFDSRLAFHHMA	181-195	Nef	55	E182V, K184R, M194V	E182V, K184R, M194V
LSPRTLNAW*	147-155	Gag	<30
KNFSPEVIPMF*	162-172	Gag	<30
TSNLQEQITW*	240-249	Gag	<30

^aEpitopes that elicited an IFN-γ response are shown with the magnitude of the response (spot-forming cells [SFC] per million PBMC). Substitutions observed in the targeted epitopes are noted. An asterisk indicates responses to autologous HLA-B*57-restricted Gag peptides.