Table 2.

Deduced Amino Acid Sequence around SLYNTVATL Epitope from Proviral DNA Sequence in Responders and Nonresponders

Donor		HLA class I A and B type		Timepoint		Deduced amino acid sequence		% Provial DNA clones
SLYNTVATL Responders
003		A2/3 B7/51		07/87		GSEELRSLYNTVATLYCVHQR		100%		n = 8
				06/95		GSEELRSLYNTVATLYCVHQR		82%		n = 13
						GSEERK SLYNTVATLYCVHQR		6%		n = 1
						GSEELRSLLNTVATLYCVHQR		6%		n = 1
						GSEELK SLYNTVATLYCVHKR		6%		n = 1
				12/95		GSEELRSLYNTVATLYCVHQR		100%		n = 16
				06/96		GSEELRSLYNTVATLYCVHQR		100%		n = 5
077		A2/3 B41/49		12/94		GSEELRSLYNTVATLYCVHQR		100%		n = 3
1M		A2/1 B7/57		08/96		GSEERK SLYNTVATLYCVHQK		100%		n = 4
5M		A2/32 B7/57		10/93		GSEELRSLYNTIAVLYCVHQR		90%		n = 28
						GSEELRSLYNTVAVLYCVHQR		10%		n = 3
				11/95		GSEEVRSLYNTVATLYCVHQR		100%		n = 4
868		A2/24 B27/35		10/95		GSEELRSLYNTVATLYCVHQR		73%		n = 8
						GSEELRSLYNTIATLYCVHQR		9%		n = 1
						GSEELK SLYNTIATLYCVHQR		9%		n = 1
						GSEERK SLYNTVATLYCVHQR		9%		n = 1
				04/96		GSEELRSLYNTIAVLYCVHQR		92%		n = 11
						GSEELK SLYNTIATLYCVHQR		8%		n = 1
				08/96		GSEELK SLYNTVATLYCVHQR		100%		n = 5
SLYNTVATL Nonresponders
023		A2/3 B7/51		07/87		GSEKLK SLHNTVATLYCVHQR		100%		n = 3
				06/95		GSEELQ SLHNAVAVLYCVHQR		70%		n = 7
						GSEELE SLYNTVATLYCVHQR		10%		n = 1
						GSEELK SLYNTVATLYCVHQR		10%		n = 1
						GSEELK SLSNTIATLYCVHQR		10%		n = 1
				12/95		GSEELQ SLHNAVAVLYCVHQR		100%		n = 10
				07/96		GSEELQ SLHNAVAVLYCVHQR		100%		n = 16
008		A2/68 B8/65		04/91		GSEEFRSLFNTVATLYCVHQR		50%		n = 3

Donor		HLA class I A and B type		Timepoint		Deduced amino acid sequence		% Proviral DNA clones
						GSEEFRSLFNTVATLYCVHQK		17%		n = 1
						GSEEFRSLLNTVATLYCVHQR		17%		n = 1
						GSEEFRSLSNTVATLYCVHQR		17%		n = 1
				04/92		GSEELK SLFNTVAVLYCVHQR		38%		n = 8
						GSEELRSLFNTVAVLYCVHQR		19%		n = 4
						GSEELK SLFNTIAVLYCVHQR		10%		n = 2
						GSEEFRSLFNTVATLYCVHQR		5%		n = 1
						GSEELK SLFNTVATLYCVHQR		14%		n = 3
						GSEELRSLYNTIAVLYCVHQR		14%		n = 3
065		A2/1 B8/44		02/93		GSEELK SLYNTVATLYCVHQR		100%		n = 28
				08/94		GSEELK SLYNTVATLYCVHQR		100%		n = 1
				05/96		GSEELK SLYNTVATLYCVHQR		100%		n = 2
						GSEELRSLYNTVATLYCVHQR		100%		n = 1
241		A2/26 B39/62		02/93		GSEELK SLYNTIATLYCVHQQ		100%		n = 6
606		A2/- B62/65		10/94		GSEELK SLFNTVATLYCVHKR		75%		n = 3
						GSEELK SLFNTVAVLYCVHKR		25%		n = 1
SLYNTVATL Responder Switched to Nonresponder
46M		A2/1 B8/62		09/94		GSEELRSLYNTVATLYCVHQR		33%		n = 6
						GSEELK SLYNTVATLYCVHQR		17%		n = 3
						GSEELRSLFNTVATLYCVHQR		11%		n = 2
						GSEELK SLFNTVATLYCVHQR		39%		n = 7
				06/95		GSEELK SLFNTVATLYCVHQR		100%		n = 2
				04/96		GTEELR SLFNTVATLYCVHQR		100%		n = 3

Continued 

Proviral DNA sequences and the encoded amino acid sequences at the region of the Gag epitope for five Gag responders, five nonresponders, and one donor whose Gag response disappeared between the first timepoint and the last; showing the timepoint (mo/yr), amino acid sequence (SLYNTVATL epitope underlined, with six amino acids either side of the epitope shown; differences from HIV_LAI sequence shown in bold); number of clones sequenced, and proportion encoding a particular amino acid sequence.