Table 2.

Genetic Properties of Patient Env Clones

							Loop length
Patient ID	Year of infection	Year of collection	ART Status	CD4 count (cu/mm3)	Env clones	Vector	V1V2	V3	V4	V5	gp41	PNLGS (gp160)	V3 loop charge	V3 tip	CoR usage
97139 (LT1)	1997	2007	Naïve	736	LT1_07.J1	pSVIIIenv	62	35	28	11	352	27	3	GPGQ	CCR5
					LT1_07.J4	pSVIIIenv	62	36	28	11	352	27	5	GPGQ	CCR5
					LT1_07.J26	pSVIIIenv	62	35	28	11	352	26	3	GPGQ	CCR5
					LT1_07.J10	pSVIIIenv	62	35	29	12	352	27	3	GPGQ	NF
					LT1_07.J15	pSVIIIenv	62	35	29	11	352	27	3	GPGQ	NF
		2009	Naïve	508	LT1_09.J3	pSVIIIenv	65	35	21	11	352	27	4	GPGQ	CCR5
					LT1_09.J6	pSVIIIenv	62	35	28	11	352	27	3	GPGQ	CCR5
					LT1_09.J8	pSVIIIenv	65	35	21	11	352	27	4	GPGQ	CCR5
					LT1_09.J9	pSVIIIenv	62	35	28	11	352	27	3	GPGQ	CCR5
991566 (LT5)	1999	2007	Naïve	720	LT5.J3	pcDNA3.1	65	35	35	13	345	26	7	GPGR	NF
					LT5.J3b	pSVIIIenv	76	35	26	13	352	32	3	GPGQ	CCR5
					LT5.J4	pcDNA3.1	71	35	26	14	345	32	2	GPGQ	NF
					LT5.J4b	pcDNA3.1	65	35	32	13	345	25	4	GPGQ	CCR5
					LT5.J7b	pSVIIIenv	68	35	26	14	352	32	4	GPGQ	CCR5
					LT5.J10	pcDNA3.1	65	34	35	13	345	26	6	GPGR	NF
					LT5.J11	pcDNA3.1	65	35	35	13	345	26	6	GPGR	NF
					LT5.J12	pcDNA3.1	74	35	26	13	345	34	3	GPGQ	CCR5
					LT5.J13	pcDNA3.1	65	35	35	13	345	26	6	GPGR	NF
					LT5.J20	pcDNA3.1	73	35	26	12	345	34	3	GPGQ	NF
					LT5.J24	pcDNA3.1	68	35	35	13	345	26	6	GPGR	NF
					LT5.J25	pcDNA3.1	65	35	35	13	345	27	6	GPGR	NF
					LT5.J26	pcDNA3.1	74	35	26	12	345	34	3	GPGQ	NF
					LT5.J28	pcDNA3.1	74	35	26	12	345	34	3	GPGQ	NF

PNLGS, potential N-linked glycosylation sites; CoR, coreceptor usage; NF, nonfunctional Env clones; ART, antiretroviral therapy.