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Displaying record number 62484

HXB2 Location  Gag(275-282)   Gag Epitope Map
View variants at this location
Epitope RMYSPTSI   Epitope Alignment
Variants
RMYSPsSI   HLA association; diminished HLA binding or increased off-rate; escape documented in this paper; observed variant; processing
RMYSPaSI   HLA association; diminished HLA binding or increased off-rate; escape documented in this paper; observed variant
RMYSPvSI   escape documented in this paper; observed variant; reversion; susceptible form
Epitope Name RI8
Species (MHC/HLA human(B*52:01)

Variant Details

Showing all: 3 variant(s).


Variant ID.  4451
Epitope Seq.  RMYSPTSI
Variant Seq.  RMYSPsSI
Mutations T/S
Epitope Location T6S
HXB2 Location T280S
Mutation Type A: HLA association
DHB: diminished HLA binding or increased off-rate
E: escape documented in this paper
OV: observed variant
P: processing
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, HLA binding, Intracellular cytokine staining, Longitudinal study, Sequence, Tetramer binding
Note Escape mutant Gag RI8 RMYSPsSI was observed in 2 (KI-108 and KI-194) of 13 B*52:01+ wild-type-infected patients in a longitudinal sequence analysis and occurred at a significantly higher frequency in 99 B*52:01+ vs. 291 B*52:01- subjects. A CTL response to RMYSPsSI was not elicited in either wild-type or RMYSPsSI-infected patients and wild-type-specific CTL clones derived from wild-type virus-infected patient KI-809 failed to recognize RMYSPsSI. RMYSPsSI had substantially weaker binding affinity vs ypefor B*52:01 molecules which may indicate diminished epitope presentation. A group of patients infected with either RMYSPsSI- or RMYSPaSI-virus had significantly lower average CD4 count vs. wild-type virus-infected patients.


Variant ID.  4452
Epitope Seq.  RMYSPTSI
Variant Seq.  RMYSPaSI
Mutations T/A
Epitope Location T6A
HXB2 Location T280A
Mutation Type A: HLA association
DHB: diminished HLA binding or increased off-rate
E: escape documented in this paper
OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, HLA binding, Intracellular cytokine staining, Longitudinal study, Sequence, Tetramer binding
Note Escape mutant Gag RI8 RMYSPaSI was observed in 1 (KI-973) of 13 B*52:01+ wild-type-infected patients in a longitudinal sequence analysis and occurred at a significantly higher frequency in 99 B*52:01+ vs. 291 B*52:01- subjects. A CTL response to RMYSPaSI was not elicited in either wild-type or RMYSPaSI-infected subjects and wild-type-specific CTL clones derived from wild-type virus-infected patient KI-809 failed to recognize RMYSPaSI. RMYSPaSI had slightly weaker binding affinity vs. wild type for B*52:01 molecules. A group of patients infected with either RMYSPsSI- or RMYSPaSI-virus had significantly lower average CD4 count vs. wild-type virus-infected patients.


Variant ID.  4453
Epitope Seq.  RMYSPTSI
Variant Seq.  RMYSPvSI
Mutations T/V
Epitope Location T6V
HXB2 Location T280V
Mutation Type E: escape documented in this paper
OV: observed variant
R: reversion
SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, CTL suppression of replication, HLA binding, Intracellular cytokine staining, Longitudinal study, Sequence, Tetramer binding
Note Escape mutant Gag RI8 RMYSPvSI occurred with statistically similar frequencies in 99 B*52:01+ and 291 B*52:01- subjects. Out of 13 B*52:01+ wild-type-infected patients, RMYSPvSI was observed in patient (KI-906) as an escape mutant while in patient KI-855, RMYSPvSI was susceptible to a CTL response and a reversion to wild-type was observed. Unlike PBMCs and wild-type-specific CTL clones, RMYSPvSI-specific and cross-reactive CTL clones acquired from KI-855 recognized RMYSPvSI, suppressed the replication of RMYSPvSI virus and may select for the wild-type virus. RMYSPvSI-specific CTL clones acquired from 4 RMYSPvSI-infected patients (KI-628, KI-698, KI-903 and KI-917) recognized RMYSPvSI and suppressed the replication of RMYSPvSI virus. The RMYSPvSI-specific CTL clone from KI-917 was also cross-reactive to the wild-type sequence. RMYSPvSI and wild-type epitopes had similar binding affinity for B*52:01 molecules and were associated with statistically similar CD4 counts. Compared to non-responders, T cell responders to RMYSPvSI or wild type had significantly higher CD4 counts and a trend towards lower plasma viral loads.

References

Zhang2020 Yu Zhang, Nozomi Kuse, Tomohiro Akahoshi, Takayuki Chikata, Hiroyuki Gatanaga, Shinichi Oka, Hayato Murakoshi, and Masafumi Takiguchi. Role of Escape Mutant-Specific T Cells in Suppression of HIV-1 Replication and Coevolution with HIV-1. J. Virol., 94(19), 15 Sep 2020. PubMed ID: 32699092. Show all entries for this paper.


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