Table II.

CDR3 sequences of HIV gag epitope-specific CD8+ T cells from five subjects, their frequency out of 100 bacterial clones, and their length with respect to the full genomic sequencea

SubjectTCRBV LocusCDR3 Amino Acid Sequence (VDJ regions)TCRBJ Locus% FrequencyCDR3 Length
TX12.1FYICS------ARDDGP---SYEQYFGPGTRLTVTE2.71002
TX28.2SAVYFCASS--TGTAM----NTEAFFGQGTRLTVVE1.1251
Epitope 18.2SAVYFCASS--QGSYGFK------YFGPGTRLTVTE2.77–1
14.1SLYFCASS---LDGQGTT----EQYFGPGTRLTVTE2.7161
14.1SLYFCASS---TTGMTS----QPQHFGDGTRLSILE1.530
3.1SMYLCASS---LGLH------YEQYFGPGTRLTVTE2.76–1
3.1SMYLCASS---DGTGVIG----GYTFGSGTRLTVVE1.261
3.1SMYLCASS---RVGN------NEQFFGPGTRLTVLE2.13–2
22.1SAMYFCASS--RAAPYD-----EQFFGPGTRLTVLE2.14–1
22.1SAMYFCASS--IGLAGF----NEQFFGPGTRLTVLE2.140
5SALYLCASS--FGRGP----YNEQFFGPGTRLTVLE2.170
18.1SAAYFCASS--PLTLGTGS-TGELFFGEGSRLTVLE2.263
18.1SAAYFCASS--IATGT----QETQYFGPGTRLLVLE2.541
2.1FYICS------APGTGN----YEQYFGPGTRLTVTE2.731
7.1/3SALYLCASS--QKGLL-----GELFFGEGSRLTVLE2.23–1
24.1DAAMYLCATS-RDLTGSV----GYTFGSGTRLTVVE1.231
TX22.1FYICS------DGP------SYEQYFGPGTRLTVTE2.7100–1
Epitope 2
TX325.1SAVYFCASS--HNEL----TNEKLFFGSGTQLSVLE1.41000
TX62.1aFYICS------DSL------TGELFFGEGSRLTVLE2.240–2
2.1bFYICS------DEGGRT---YNEQFFGPGTRLTVLE2.1381
7.1/2/3SALYLCASS--QDVG-----TDTQYFGPGTRLTVLE2.322–1
TX75.1aSALYLCASS--FDRDK--------FFGPGTRLTVLE2.111–4
5.1bSALYLCASS--FDPP-----NTEAFFGQGTRLTVVE1.1770
8.1SAVYFCAS---RYTG-------EQYFGPGTRLTVTE2.73–2
6.4SAMYLCASR--ITGG------NEQFFGPGTRLTVLE2.13–2
7.1SALYLCASS--QERTMLD----IQYFDAGTRLSVLE2.440
17TAFYLCASSI-TG-------NTEAFFGQGTRLTVVE1.12–2
  • a Peptides used for stimulation are marked with an asterisk in Fig. 1.