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Found 9 matching records:

Displaying record number 83

HXB2 Location  Gag(77-85)   Gag Epitope Map
View variants at this location
Epitope SLYNTVATL   Epitope Alignment
Variants
SLfNTVATL   observed variant
Epitope Name SL9
Species (MHC/HLA human(A2)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1555
Epitope Seq.  SLYNTVATL
Variant Seq.  SLfNTVATL
Mutations Y/F
Epitope Location Y3F
HXB2 Location Y79F
Mutation Type OV: observed variant
Epitope Subtype B, D
Variant Subtype A
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade A variant, SLfNTVATL.

References

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


Displaying record number 195

HXB2 Location  Gag(183-191)   Gag Epitope Map
View variants at this location
Epitope DLNTMLNTV   Epitope Alignment
Variants
DLNmMLNiV   observed variant
Species (MHC/HLA human(B14, Cw8)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1556
Epitope Seq.  DLNTMLNTV
Variant Seq.  DLNmMLNiV
Mutations T/M T/I
Epitope Location T4M T8I
HXB2 Location T186M T190I
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype D
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade D variant, DLNmMLNiV.

References

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


Displaying record number 322

HXB2 Location  Gag(298-306)   Gag Epitope Map
View variants at this location
Epitope DRFWKTLRA   Epitope Alignment
Variants
DRFfKTLRA   observed variant
Species (MHC/HLA human(B14)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1557
Epitope Seq.  DRFWKTLRA
Variant Seq.  DRFfKTLRA
Mutations W/F
Epitope Location W4F
HXB2 Location W301F
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype A
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade A variant, DRFfKTLRA.

References

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


Displaying record number 333

HXB2 Location  Gag(305-313)   Gag Epitope Map
View variants at this location
Epitope RAEQASQEV   Epitope Alignment
Variants
RAEQAtQEV   observed variant
RAEQ-SQdV   observed variant
Species (MHC/HLA human(Cw8)

Variant Details

Showing all: 2 variant(s).


Variant ID.  1558
Epitope Seq.  RAEQASQEV
Variant Seq.  RAEQAtQEV
Mutations S/T
Epitope Location S6T
HXB2 Location S310T
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype A
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade A variant, RAEQAtQEV.


Variant ID.  2263
Epitope Seq.  RAEQASQEV
Variant Seq.  RAEQ-SQdV
Mutations A/- E/D
Epitope Location A5- E8D
HXB2 Location A309- E312D
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype D
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade A variant, RAEQsQdV.

References

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


Displaying record number 463

HXB2 Location  Pol(330-338)   Pol Epitope Map
View variants at this location
Epitope NPDIVIYQY   Epitope Alignment
Variants
NPeIVIYQY   diminished HLA binding or increased off-rate; susceptible form
NPDlVIYQY   susceptible form
NPDIiIYQY   diminished HLA binding or increased off-rate; susceptible form
Species (MHC/HLA human(B35)

Variant Details

Showing all: 3 variant(s).


Variant ID.  1263
Epitope Seq.  NPDIVIYQY
Variant Seq.  NPeIVIYQY
Mutations D/E
Epitope Location D3E
HXB2 Location D332E
Mutation Type DHB: diminished HLA binding or increased off-rate
SF: susceptible form
Epitope Subtype B
Variant Subtype D
Method Chromium-release assay, HLA binding
Note This D177E natural variant which is the consensus for clade D, displayed CTL cross-reactivity with the consensus, index epitope, NPDIVIYQY. Binding to HLA-B35 was diminished.


Variant ID.  1264
Epitope Seq.  NPDIVIYQY
Variant Seq.  NPDlVIYQY
Mutations I/L
Epitope Location I4L
HXB2 Location I333L
Mutation Type SF: susceptible form
Epitope Subtype B
Method Chromium-release assay
Note This I178L natural variant displayed CTL cross-reactivity with the consensus, index epitope.


Variant ID.  1265
Epitope Seq.  NPDIVIYQY
Variant Seq.  NPDIiIYQY
Mutations V/I
Epitope Location V5I
HXB2 Location V334I
Mutation Type DHB: diminished HLA binding or increased off-rate
SF: susceptible form
Epitope Subtype B
Method Chromium-release assay, HLA binding
Note This V179I natural variant displayed CTL cross-reactivity with the consensus, index epitope. Binding to HLA-B35 was diminished.

References

Menendez-Arias1998 L. Menendez-Arias, A. Mas, and E. Domingo. Cytotoxic T-Lymphocyte Responses to HIV-1 Reverse Transcriptase. Viral Immunol., 11:167-181, 1998. PubMed ID: 10189185. Show all entries for this paper.

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


Displaying record number 517

HXB2 Location  Pol(464-472)   Pol Epitope Map
View variants at this location
Epitope ILKEPVHGV   Epitope Alignment
Variants
ILKdPVHGV   observed variant
Species (MHC/HLA human(A2)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1560
Epitope Seq.  ILKEPVHGV
Variant Seq.  ILKdPVHGV
Mutations E/D
Epitope Location E4D
HXB2 Location E467D
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype A
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade A variant, ILKdPVHGV.

References

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


Displaying record number 1054

HXB2 Location  Nef(128-137)   Nef Epitope Map
View variants at this location
Epitope TPGPGVRYPL   Epitope Alignment
Variants
TPGPGiRYPL   observed variant
Species (MHC/HLA human(B7)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1561
Epitope Seq.  TPGPGVRYPL
Variant Seq.  TPGPGiRYPL
Mutations V/I
Epitope Location V6I
HXB2 Location V133I
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype A
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade A variant, TPGPGiRYPL.

References

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


Displaying record number 1069

HXB2 Location  Nef(135-143)   Nef Epitope Map
View variants at this location
Epitope YPLTFGWCY   Epitope Alignment
Variants
YPLTFGWCf   observed variant
Species (MHC/HLA human(B49)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1562
Epitope Seq.  YPLTFGWCY
Variant Seq.  YPLTFGWCf
Mutations Y/F
Epitope Location Y9F
HXB2 Location Y143F
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype D
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade A variant, YPLTFGWCf.

References

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


Displaying record number 1095

HXB2 Location  Nef(190-198)   Nef Epitope Map
View variants at this location
Epitope AFHHVAREL   Epitope Alignment
Variants
AlkHrAyEL   observed variant
AFeHkAREm   observed variant
Species (MHC/HLA human(A2)

Variant Details

Showing all: 2 variant(s).


Variant ID.  1563
Epitope Seq.  AFHHVAREL
Variant Seq.  AlkHrAyEL
Mutations F/L H/K V/R R/Y
Epitope Location F2L H3K V5R R7Y
HXB2 Location F191L H192K V194R R196Y
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype A
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade A variant, AlkHrAyEL.


Variant ID.  1564
Epitope Seq.  AFHHVAREL
Variant Seq.  AFeHkAREm
Mutations H/E V/K L/M
Epitope Location H3E V5K L9M
HXB2 Location H192E V194K L198M
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype D
Method Chromium-release assay
Note 5/6 Kenyan HEPS subjects recognized this clade B epitope which differed from the clade D variant, AFeHkAREm.

References

Connan1994 F. Connan, F. Hlavac, J. Hoebeke, J. G. Guillet, and J. Choppin. A Simple Assay for Detection of Peptides Promoting the Assembly of HLA Class I Molecules. Eur. J. Immunol., 24:777-780, 1994. Peptides from influenza and HIV-1 were tested for their ability to promote the assembly of HLA-A2 and HLA-B51 molecules in T2 cell lysates. HIV Pol 476-484 allowed significant assembly of HLA-A2, and is a target for CTL. Nef peptide 186-194 produced significant assembly of HLA-B51. A hydrophobic anchor residue (V, L, I) at position 9 could occupy pocket F, and a hydrophobic residue (V, L) at position 3 or 4 may anchor to hydrophobic pocket D of HLA-B51. Proline at position 2 increases HLA-B51 anchoring. PubMed ID: 8125145. Show all entries for this paper.

Hadida1995 F. Hadida, G. Haas, G. Zimmermann, A. Hosmalin, R. Spohn, A. Samri, G. Jung, P. Debre, and B. Autran. CTLs from Lymphoid Organs Recognize an Optimal HLA-A2 Restricted and HLA-B52 Restricted Nonapeptide and Several Epitopes in the C-Terminal Region of HIV-1 Nef. J. Immunol., 154:4174-4186, 1995. An in vitro limiting dilution analysis showed CTL recognition in the context of HLA B52 and A2.1, A2.2 and A2.4 in nanomolar concentrations. Molecular modeling suggests motifs important for peptide binding to the pocket of an HLA-A2.1 molecule. PubMed ID: 7535824. Show all entries for this paper.

RowlandJones1998b S. Rowland-Jones, T. Dong, P. Krausa, J. Sutton, H. Newell, K. Ariyoshi, F. Gotch, S. Sabally, T. Corrah, J. Kimani, K. MacDonald, F. Plummer, J. Ndinya-Achola, H. Whittle, and A. McMichael. The Role of Cytotoxic T Cells in HIV Infection. Dev. Biol. Stand., 92:209-214, 1998. In this paper CTL response to previously defined conserved epitopes was found in exposed but uninfected prostitutes in Nairobi. Subtypes A and D are circulating in this regions, and the reactive epitopes tended to be conserved. Similarly previous studies in the Gambia showed that exposed but uninfected prostitutes tended to have B35 presented CTL epitopes conserved between HIV-1 and HIV-2. It was suggested that what was special about B35 is simply that it presents epitopes found both in HIV-1 and HIV-2. PubMed ID: 9554277. Show all entries for this paper.


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