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Found 3 matching records:

Displaying record number 61629

HXB2 Location  Gag(147-155)   Gag Epitope Map
View variants at this location
Epitope ISPRTLNAW   Epitope Alignment
Variants
xSPRTLNAW   HLA association; literature escape; observed variant; subtype-specific non-susceptible form
lSPRTLNAW   literature escape
Epitope Name ISW9
Species (MHC/HLA human(B*57:03)

Variant Details

Showing all: 2 variant(s).


Variant ID.  4021
Epitope Seq.  ISPRTLNAW
Variant Seq.  xSPRTLNAW
Mutations I/X
Epitope Location I1X
HXB2 Location I147X
Mutation Type A: HLA association
LE: literature escape
OV: observed variant
SNSF: subtype-specific non-susceptible form
Epitope Subtype B
Variant Subtype B
Method Sequence
Note Polymorphism at I147X, for escape xSPRTLNAW, was associated with HLA-B*5703 in B-infected subjects of the Barbados cohort.


Variant ID.  4023
Epitope Seq.  ISPRTLNAW
Variant Seq.  lSPRTLNAW
Mutations I/L
Epitope Location I1L
HXB2 Location I147L
Mutation Type LE: literature escape
Epitope Subtype B, C
Variant Subtype B, C
Method Sequence
Note There are no observable clade-specific differences between C-clade (Botswana) and B-clade (Barbados) 147L.

References

Payne2014 R. P. Payne, S. Branch, H Kløverpris, P. C. Matthews, C. K. Koofhethile, T. Strong, E. Adland, E. Leitman, J. Frater, T. Ndung'u, E. Hunter, R. Haubrich, B. Mothe, A. Edwards, L. Riddell, F. Chen, P. R. Harrigan, Z. L. Brumme, S. Mallal, M. John, J. P. Jooste, R. Shapiro, S. G. Deeks, B. D. Walker, C. Brander, C. Landis, J. M. Carlson, J. G. Prado, and P. J. R. Goulder. Differential Escape Patterns within the Dominant HLA-B*57:03-Restricted HIV Gag Epitope Reflect Distinct Clade-Specific Functional Constraints. J. Virol., 88(9):4668-4678, May 2014. PubMed ID: 24501417. Show all entries for this paper.


Displaying record number 59380

HXB2 Location  Gag(162-172)   Gag Epitope Map
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Epitope KAFSPEVIPMF   Epitope Alignment
Variants
KgFSPEVIPMF   literature escape; replicative capacity reduced; subtype-specific non-susceptible form
KAFnPEVIPMF   literature escape; replicative capacity reduced; subtype-specific non-susceptible form
KgFnPEVIPMF   literature escape; replicative capacity reduced; subtype-specific non-susceptible form
KAFSPEVIPMF{t}   literature escape; replicative capacity reduced; subtype-specific non-susceptible form
KsFSPEiIPMF   observed variant
KsFSPEVIPMF   observed variant
KAFkPEVIPMF   observed variant
KAFSPEiIPMF   observed variant
KAFnPEVIPMF{i}   observed variant
KAFSPEVIPMF{a}   observed variant
KgFnPEVIPMF{a}   observed variant
KAFSPEiIPMF{t}   observed variant
KsFSPEVIPMF{t}   observed variant
KnFSPEVIPMF{t}   observed variant
Epitope Name KF11
Species (MHC/HLA human(B*57:01, B*57:03)

Variant Details

Showing all: 14 variant(s).


Variant ID.  3458
Epitope Seq.  KAFSPEVIPMF
Variant Seq.  KgFSPEVIPMF
Mutations A/G
Epitope Location A2G
HXB2 Location A163G
Mutation Type LE: literature escape
RCR: replicative capacity reduced
SNSF: subtype-specific non-susceptible form
Epitope Subtype B, C
Variant Subtype B, C
Method CD8 T-cell Elispot - IFNy, Relative replication capacity assay, TCR binding
Note Escape variants A163G and S165N are selected in ˜70% of C-infected B*5703-positive subjects, but are not found in B-infected B*5703-positive subjects. The introduction of either or both of these mutations decreases viral replication. There were observable clade-specific differences between C-clade (Botswana) and B-clade (Barbados) 163G.


Variant ID.  3459
Epitope Seq.  KAFSPEVIPMF
Variant Seq.  KAFnPEVIPMF
Mutations S/N
Epitope Location S4N
HXB2 Location S165N
Mutation Type LE: literature escape
RCR: replicative capacity reduced
SNSF: subtype-specific non-susceptible form
Epitope Subtype B, C
Variant Subtype B, C
Method CD8 T-cell Elispot - IFNy, Relative replication capacity assay, TCR binding
Note Escape variants A163G and S165N are selected in ˜70% of C-infected B*5703-positive subjects, but are not found in B-infected B*5703-positive subjects. The introduction of either or both of these mutations decreases viral replication. There are no observable clade-specific differences between C-clade (Botswana) and B-clade (Barbados) 165N. 0% B*5703+ and 2% B*5703- subjects of the B-infected Barbados cohort carried variant KAFnPEVIPMF.


Variant ID.  3461
Epitope Seq.  KAFSPEVIPMF
Variant Seq.  KgFnPEVIPMF
Mutations A/G S/N
Epitope Location A2G S4N
HXB2 Location A163G S165N
Mutation Type LE: literature escape
RCR: replicative capacity reduced
SNSF: subtype-specific non-susceptible form
Epitope Subtype B, C
Variant Subtype B, C
Method CD8 T-cell Elispot - IFNy, Relative replication capacity assay, TCR binding
Note Escape variants A163G and S165N are selected in ˜70% of C-infected B*5703-positive subjects, but are not found in B-infected B*5703-positive subjects, i.e. this double polymorphism is not associated with B*5703. The introduction of either or both of these mutations decreases viral replication. 0% B*5703+ and 1% B*5703- subjects of the B-infected Barbados cohort carried variant KgFnPEVIPMF.


Variant ID.  3462
Epitope Seq.  KAFSPEVIPMF{S}
Variant Seq.  KAFSPEVIPMF{t}
Mutations S/T
Epitope Location S+1T
HXB2 Location S173T
Mutation Type LE: literature escape
RCR: replicative capacity reduced
SNSF: subtype-specific non-susceptible form
Epitope Subtype B, C
Variant Subtype B, C
Method CD8 T-cell Elispot - IFNy, Relative replication capacity assay, TCR binding
Note S173T in combination with either/both A163G and S165N results in reduced a B subtype virus with reduce replicative capacity in B*5703-expressing T cells. There were observable clade-specific differences between C-clade (Botswana) and B-clade (Barbados) 173T. 47% B*5703+ and 23% B*5703- subjects of the Barbados cohort carried variant KAFSPEVIPMF{t} in the +1 position.


Variant ID.  4024
Epitope Seq.  KAFSPEVIPMF
Variant Seq.  KsFSPEiIPMF
Mutations A/S V/I
Epitope Location A2S V7I
HXB2 Location A163S V168I
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 7% B*5703+ and 0% B*5703- subjects of the B-infected Barbados cohort carried variant KsFSPEiIPMF.


Variant ID.  4025
Epitope Seq.  KAFSPEVIPMF
Variant Seq.  KsFSPEVIPMF
Mutations A/S
Epitope Location A2S
HXB2 Location A163S
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 7% B*5703+ and 1% B*5703- subjects of the B-infected Barbados cohort carried variant KsFSPEVIPMF.


Variant ID.  4026
Epitope Seq.  KAFSPEVIPMF
Variant Seq.  KAFkPEVIPMF
Mutations S/K
Epitope Location S4K
HXB2 Location S165K
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 7% B*5703+ and 0% B*5703- subjects of the B-infected Barbados cohort carried variant KAFkPEVIPMF.


Variant ID.  4027
Epitope Seq.  KAFSPEVIPMF
Variant Seq.  KAFSPEiIPMF
Mutations V/I
Epitope Location V7I
HXB2 Location V168I
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 0% B*5703+ and 1% B*5703- subjects of the B-infected Barbados cohort carried variant KAFSPEiIPMF.


Variant ID.  4028
Epitope Seq.  KAFSPEVIPMF{S}
Variant Seq.  KAFnPEVIPMF{i}
Mutations S/I S/N
Epitope Location S+1I S4N
HXB2 Location S173I S165N
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 7% B*5703+ and 0% B*5703- subjects of the Barbados cohort carried variant KAFnPEVIPMF{i} in the +1 position.


Variant ID.  4029
Epitope Seq.  KAFSPEVIPMF{S}
Variant Seq.  KAFSPEVIPMF{a}
Mutations S/A
Epitope Location S+1A
HXB2 Location S173A
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 0% B*5703+ and 1% B*5703- subjects of the Barbados cohort carried variant KAFSPEVIPMF{a} in the +1 position.


Variant ID.  4030
Epitope Seq.  KAFSPEVIPMF{S}
Variant Seq.  KgFnPEVIPMF{a}
Mutations S/A A/G S/N
Epitope Location S+1A A2G S4N
HXB2 Location S173A A163G S165N
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 0% B*5703+ and 1% B*5703- subjects of the Barbados cohort carried variant KgFnPEVIPMF{a} in the +1 position.


Variant ID.  4031
Epitope Seq.  KAFSPEVIPMF{S}
Variant Seq.  KAFSPEiIPMF{t}
Mutations S/T V/I
Epitope Location S+1T V7I
HXB2 Location S173T V168I
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 7% B*5703+ and 0% B*5703- subjects of the Barbados cohort carried variant KAFSPEiIPMF{t} in the +1 position.


Variant ID.  4032
Epitope Seq.  KAFSPEVIPMF{S}
Variant Seq.  KsFSPEVIPMF{t}
Mutations S/T A/S
Epitope Location S+1T A2S
HXB2 Location S173T A163S
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 7% B*5703+ and 0% B*5703- subjects of the Barbados cohort carried variant KsFSPEVIPMF{t} in the +1 position.


Variant ID.  4033
Epitope Seq.  KAFSPEVIPMF{S}
Variant Seq.  KnFSPEVIPMF{t}
Mutations S/T A/N
Epitope Location S+1T A2N
HXB2 Location S173T A163N
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note 0% B*5703+ and 1% B*5703- subjects of the Barbados cohort carried variant KnFSPEVIPMF{t} in the +1 position.

References

Payne2014 R. P. Payne, S. Branch, H Kløverpris, P. C. Matthews, C. K. Koofhethile, T. Strong, E. Adland, E. Leitman, J. Frater, T. Ndung'u, E. Hunter, R. Haubrich, B. Mothe, A. Edwards, L. Riddell, F. Chen, P. R. Harrigan, Z. L. Brumme, S. Mallal, M. John, J. P. Jooste, R. Shapiro, S. G. Deeks, B. D. Walker, C. Brander, C. Landis, J. M. Carlson, J. G. Prado, and P. J. R. Goulder. Differential Escape Patterns within the Dominant HLA-B*57:03-Restricted HIV Gag Epitope Reflect Distinct Clade-Specific Functional Constraints. J. Virol., 88(9):4668-4678, May 2014. PubMed ID: 24501417. Show all entries for this paper.


Displaying record number 61630

HXB2 Location  Gag(240-249)   Gag Epitope Map
View variants at this location
Epitope TSTLQEQIGW   Epitope Alignment
Variants
TSnLQEQIGW   HLA association; literature escape; observed variant; subtype-specific non-susceptible form
Epitope Name TW10
Species (MHC/HLA human(B*57:03)

Variant Details

Showing all: 1 variant(s).


Variant ID.  4022
Epitope Seq.  TSTLQEQIGW
Variant Seq.  TSnLQEQIGW
Mutations T/N
Epitope Location T3N
HXB2 Location T242N
Mutation Type A: HLA association
LE: literature escape
OV: observed variant
SNSF: subtype-specific non-susceptible form
Epitope Subtype B, C
Variant Subtype B, C
Method Sequence
Note Polymorphism at T242N, for escape TSnLQEQIGW, was associated with HLA-B*5703 in B-infected subjects of the Barbados cohort. There are no observable clade-specific differences between C-clade (Botswana) and B-clade 242N.

References

Payne2014 R. P. Payne, S. Branch, H Kløverpris, P. C. Matthews, C. K. Koofhethile, T. Strong, E. Adland, E. Leitman, J. Frater, T. Ndung'u, E. Hunter, R. Haubrich, B. Mothe, A. Edwards, L. Riddell, F. Chen, P. R. Harrigan, Z. L. Brumme, S. Mallal, M. John, J. P. Jooste, R. Shapiro, S. G. Deeks, B. D. Walker, C. Brander, C. Landis, J. M. Carlson, J. G. Prado, and P. J. R. Goulder. Differential Escape Patterns within the Dominant HLA-B*57:03-Restricted HIV Gag Epitope Reflect Distinct Clade-Specific Functional Constraints. J. Virol., 88(9):4668-4678, May 2014. PubMed ID: 24501417. Show all entries for this paper.


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