HIV molecular immunology database
Found 4 matching records:
| HXB2 Location | Gag(162-172) | Gag Epitope Map
View variants at this location |
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| Epitope |
KAFSPEVIPMF
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Epitope Alignment | ||||||||||||||||||||||
| Variants |
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| Epitope Name | KF11 | |||||||||||||||||||||||
| Species (MHC/HLA) | human(B*57) | |||||||||||||||||||||||
Showing all: 7 variant(s).
| Variant ID. | 913 |
|---|---|
| Epitope Seq. | KAFSPEVIPMF |
| Variant Seq. | KgFSPEVIPMF |
| Mutations | A/G |
| Epitope Location | A2G |
| HXB2 Location | A163G |
| Mutation Type | A: HLA association E: escape documented in this paper NSF: non-susceptible form |
| Method | CD8 T-cell Elispot - IFNy, Sequence |
| Note | Mutation A163G is suggested to be a result of selection pressure from the HLA-B*57 allele, and can be transmitted and stable in the absence of HLA-B*57. Experimental evidence indicated that the mechanism of escape was an increased off-rate; CTL recognition of KgFSPEVIPMF was ablated. 3% of HLA-B*57-positive subjects, 2% of HLA-B*5801-positive subjects carried this variant. |
| Variant ID. | 3067 |
|---|---|
| Epitope Seq. | KAFSPEVIPMF |
| Variant Seq. | KnFSPEVIPMF |
| Mutations | A/N |
| Epitope Location | A2N |
| HXB2 Location | A163N |
| Mutation Type | A: HLA association E: escape documented in this paper NSF: non-susceptible form |
| Method | CD8 T-cell Elispot - IFNy, Sequence |
| Note | Variant KnFSPEVIPMF (A163N) did not elicit response in EliSpot assays. 8% of HLA-B*57-positive subjects, 2% of HLA-B*5801-positive subjects, and 1% of HLA-B&57/5801-negative subjects carried this variant. |
| Variant ID. | 3068 |
|---|---|
| Epitope Seq. | KAFSPEVIPMF |
| Variant Seq. | KgFnPEVIPMF |
| Mutations | A/G S/N |
| Epitope Location | A2G S4N |
| HXB2 Location | A163G S165N |
| Mutation Type | A: HLA association E: escape documented in this paper NSF: non-susceptible form |
| Method | CD8 T-cell Elispot - IFNy, Sequence |
| Note | For mutation A163G, S165N CTL recognition of KgFnPEVIPMF was ablated. 14% of HLA-B*57-positive subjects, 6% of HLA-B*5801-positive subjects, and 5% of HLA-B*57/5801-negative subjects carried this variant. |
| Variant ID. | 3069 |
|---|---|
| Epitope Seq. | KAFSPEVIPMF |
| Variant Seq. | KgFkPEVIPMF |
| Mutations | A/G S/K |
| Epitope Location | A2G S4K |
| HXB2 Location | A163G S165K |
| Mutation Type | A: HLA association DHB: diminished HLA binding or increased off-rate E: escape documented in this paper NSF: non-susceptible form |
| Method | CD8 T-cell Elispot - IFNy, Sequence |
| Note | For mutation A163G, S165K CTL recognition of KgFkPEVIPMF was ablated. 8% of HLA-B*57-positive subjects carried this variant. |
| Variant ID. | 3070 |
|---|---|
| Epitope Seq. | KAFSPEVIPMF |
| Variant Seq. | KsFSPEtIPMF |
| Mutations | A/S V/T |
| Epitope Location | A2S V7T |
| HXB2 Location | A163S V168T |
| Mutation Type | OV: observed variant |
| Method | Sequence |
| Note | Variant KsFSPEtIPMF (A163S, S168T) was found in 3% of HLA-B*57-positive subjects. |
| Variant ID. | 3071 |
|---|---|
| Epitope Seq. | KAFSPEVIPMF |
| Variant Seq. | KAFSPEiIPMF |
| Mutations | V/I |
| Epitope Location | V7I |
| HXB2 Location | V168I |
| Mutation Type | OV: observed variant |
| Method | Sequence |
| Note | Variant KAFSPEiIPMF (V168I) was found in 4% of HLA-B*57-positive, and 7% of HLA-B*57/5802-negative subjects. |
| Variant ID. | 3072 |
|---|---|
| Epitope Seq. | KAFSPEVIPMF |
| Variant Seq. | KAFnPEVIPMF |
| Mutations | S/N |
| Epitope Location | S4N |
| HXB2 Location | S165N |
| Mutation Type | OV: observed variant |
| Method | Sequence |
| Note | Mutation S165N was found in 7% of HLA-B*57/5801-negative subjects. |
Leslie2005a Alasdair Leslie, Daniel Kavanagh, Isobella Honeyborne, Katja Pfafferott, Charles Edwards, Tilly Pillay, Louise Hilton, Christina Thobakgale, Danni Ramduth, Rika Draenert, Sylvie Le Gall, Graz Luzzi, Anne Edwards, Christian Brander, Andrew K. Sewell, Sarah Moore, James Mullins, Corey Moore, Simon Mallal, Nina Bhardwaj, Karina Yusim, Rodney Phillips, Paul Klenerman, Bette Korber, Photini Kiepiela, Bruce Walker, and Philip Goulder. Transmission and Accumulation of CTL Escape Variants Drive Negative Associations between HIV Polymorphisms and HLA. J. Exp. Med., 201(6):891-902, 21 Mar 2005. PubMed ID: 15781581. Show all entries for this paper.
| HXB2 Location | Pol(743-751) | Pol Epitope Map
View variants at this location |
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| Epitope |
LPPIVAKEI
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Epitope Alignment | ||||
| Variants |
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| Epitope Name | LI9 | |||||
| Species (MHC/HLA) | human(B51) | |||||
Showing all: 1 variant(s).
| Variant ID. | 3073 |
|---|---|
| Epitope Seq. | LPPIVAKEI |
| Variant Seq. | LPPvVAKEI |
| Mutations | I/V |
| Epitope Location | I4V |
| HXB2 Location | I746V |
| Mutation Type | A: HLA association OV: observed variant |
| Epitope Subtype | B, C |
| Variant Subtype | B, C |
| Method | Sequence |
| Note | Variant LPPvVAKEI (I31V) is found in both clades B and C. For Clade C, the consensus 31I form is present in 68% B*51- subjects, but the variant 31V form is present in all 6/6 B*51+ subjects. The 31V form is stably transmitted from B*51+ donors to B*51- recipients. In B-clade, where HLA-B*51 is not rare (as in C-clade, South Africa), the 31V form has become the consensus. |
Leslie2005a Alasdair Leslie, Daniel Kavanagh, Isobella Honeyborne, Katja Pfafferott, Charles Edwards, Tilly Pillay, Louise Hilton, Christina Thobakgale, Danni Ramduth, Rika Draenert, Sylvie Le Gall, Graz Luzzi, Anne Edwards, Christian Brander, Andrew K. Sewell, Sarah Moore, James Mullins, Corey Moore, Simon Mallal, Nina Bhardwaj, Karina Yusim, Rodney Phillips, Paul Klenerman, Bette Korber, Photini Kiepiela, Bruce Walker, and Philip Goulder. Transmission and Accumulation of CTL Escape Variants Drive Negative Associations between HIV Polymorphisms and HLA. J. Exp. Med., 201(6):891-902, 21 Mar 2005. PubMed ID: 15781581. Show all entries for this paper.
| HXB2 Location | Nef(82-90) | Nef Epitope Map
View variants at this location |
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| Epitope |
KAAVDLSHF
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Epitope Alignment | ||||
| Variants |
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| Epitope Name | KF9 | |||||
| Species (MHC/HLA) | human(B*57, B*58:01) | |||||
Showing all: 1 variant(s).
| Variant ID. | 915 |
|---|---|
| Epitope Seq. | KAAVDLSHF |
| Variant Seq. | KgAVDLSHF |
| Mutations | A/G |
| Epitope Location | A2G |
| HXB2 Location | A83G |
| Mutation Type | DHB: diminished HLA binding or increased off-rate E: escape documented in this paper SF: susceptible form |
| Variant Subtype | B |
| Note | This variant form of the epitope was shown to be an escape variant by virtue of an increased off-rate; however Elispot reactions to both variant and wt are positive. The escape form was shown to be transmitted, and the most common form of the epitope in a B clade infected population in Perth, Australia (52%), though the proportion of HLA-B*57/5801+ population carrying the escape form was 86%. |
Leslie2005a Alasdair Leslie, Daniel Kavanagh, Isobella Honeyborne, Katja Pfafferott, Charles Edwards, Tilly Pillay, Louise Hilton, Christina Thobakgale, Danni Ramduth, Rika Draenert, Sylvie Le Gall, Graz Luzzi, Anne Edwards, Christian Brander, Andrew K. Sewell, Sarah Moore, James Mullins, Corey Moore, Simon Mallal, Nina Bhardwaj, Karina Yusim, Rodney Phillips, Paul Klenerman, Bette Korber, Photini Kiepiela, Bruce Walker, and Philip Goulder. Transmission and Accumulation of CTL Escape Variants Drive Negative Associations between HIV Polymorphisms and HLA. J. Exp. Med., 201(6):891-902, 21 Mar 2005. PubMed ID: 15781581. Show all entries for this paper.
| HXB2 Location | Nef(82-90) | Nef Epitope Map
View variants at this location |
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| Epitope |
KAAFDLSFF
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Epitope Alignment | |||||||||||||
| Variants |
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| Epitope Name | KF9 | ||||||||||||||
| Species (MHC/HLA) | human(B*57, B*58:01) | ||||||||||||||
Showing all: 4 variant(s).
| Variant ID. | 3062 |
|---|---|
| Epitope Seq. | KAAFDLSFF |
| Variant Seq. | KgAFDLSFF |
| Mutations | A/G |
| Epitope Location | A2G |
| HXB2 Location | A83G |
| Mutation Type | A: HLA association DHB: diminished HLA binding or increased off-rate DR: diminished response E: escape documented in this paper |
| Epitope Subtype | C |
| Variant Subtype | C |
| Method | CD8 T-cell Elispot - IFNy, HLA binding, Sequence |
| Note | The KgAFDLSFF (A83G) form of the epitope was shown to be an escape mutation by virtue of increased off-rate; and diminished CTL recognition in 3 patients, but ablated recognition by ex-vivo EliSpot. Consensus KF9 in a B*57/5801 negative mother quickly mutates to the variant A83G form when transmitted to B*57/5801 positive infants. This variant form was transmitted and persisted from mother to infant in B*57/5801 positive and B*57/5801 negative pairs. |
| Variant ID. | 3064 |
|---|---|
| Epitope Seq. | KAAFDLSFF |
| Variant Seq. | KgAFgLSFF |
| Mutations | A/G D/G |
| Epitope Location | A2G D5G |
| HXB2 Location | A83G D86G |
| Mutation Type | A: HLA association OV: observed variant |
| Epitope Subtype | C |
| Variant Subtype | C |
| Method | Sequence |
| Note | The KgAFgLSFF (A83G, D86G) form of the epitope was a variant found in an HLA-B*57/5801 positive child, S30. This variant was found at 9 months postpartum and was transmitted initially from its HLA-B*57/5801 negative KAAFgLSFF (D86G)-carrying mother, S30. |
| Variant ID. | 3065 |
|---|---|
| Epitope Seq. | KAAFDLSFF |
| Variant Seq. | KAAFgLSFF |
| Mutations | D/G |
| Epitope Location | D5G |
| HXB2 Location | D86G |
| Mutation Type | OV: observed variant |
| Epitope Subtype | C |
| Variant Subtype | C |
| Method | Sequence |
| Note | The KAAFgLSFF (D86G) form of the epitope was a variant found in an HLA-B*57/5801 negative mother, S30 from 6-weeks up to 9 months postpartum. |
| Variant ID. | 3066 |
|---|---|
| Epitope Seq. | KAAFDLSFF |
| Variant Seq. | KgAvDLSFF |
| Mutations | A/G F/V |
| Epitope Location | A2G F4V |
| HXB2 Location | A83G F85V |
| Mutation Type | OV: observed variant SF: susceptible form |
| Epitope Subtype | C |
| Variant Subtype | C |
| Method | Sequence |
| Note | Variant KgAvDLSFF was found in a mother child pair, both of whom were HLA-B*57/5801 negative. It persisted in the child up to 2 years postpartum. |
Leslie2005a Alasdair Leslie, Daniel Kavanagh, Isobella Honeyborne, Katja Pfafferott, Charles Edwards, Tilly Pillay, Louise Hilton, Christina Thobakgale, Danni Ramduth, Rika Draenert, Sylvie Le Gall, Graz Luzzi, Anne Edwards, Christian Brander, Andrew K. Sewell, Sarah Moore, James Mullins, Corey Moore, Simon Mallal, Nina Bhardwaj, Karina Yusim, Rodney Phillips, Paul Klenerman, Bette Korber, Photini Kiepiela, Bruce Walker, and Philip Goulder. Transmission and Accumulation of CTL Escape Variants Drive Negative Associations between HIV Polymorphisms and HLA. J. Exp. Med., 201(6):891-902, 21 Mar 2005. PubMed ID: 15781581. Show all entries for this paper.