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HIV Molecular Immunology Database

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Found 7 matching records:

Displaying record number 54544

HXB2 Location  Nef(77-85)   Nef Epitope Map
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Epitope RPMTYKGAL   Epitope Alignment
Variants
RPMTYraAr   susceptible form
Epitope Name RL9
Species (MHC/HLA human(B7 supertype)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1029
Epitope Seq.  RPMTYKGAL
Variant Seq.  RPMTYraAr
Mutations K/R G/A L/R
Epitope Location K6R G7A L9R
HXB2 Location K82R G83A L85R
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B.

References

Malhotra2007a Uma Malhotra, Fusheng Li, Jessica Nolin, Megan Allison, Hong Zhao, James I. Mullins, Steve Self, and M. Juliana McElrath. Enhanced Detection of Human Immunodeficiency Virus Type 1 (HIV-1) Nef-Specific T Cells Recognizing Multiple Variants in Early HIV-1 Infection. J. Virol., 81(10):5225-5237, May 2007. PubMed ID: 17329342. Show all entries for this paper.


Displaying record number 54541

HXB2 Location  Nef(83-91)   Nef Epitope Map
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Epitope AAVDLSHFL   Epitope Alignment
Variants
gAVDLSHFL   susceptible form
AAiDLSHFL   susceptible form
AAlDLSHFL   diminished response; susceptible form
gAlDLSHFL   diminished response
gAfDLSHFL   diminished response; non-susceptible form
Epitope Name AL9
Species (MHC/HLA human(B62, Cw8)

Variant Details

Showing all: 5 variant(s).


Variant ID.  1030
Epitope Seq.  AAVDLSHFL
Variant Seq.  gAVDLSHFL
Mutations A/G
Epitope Location A1G
HXB2 Location A83G
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was recognized by an HLA-B62- (Subject 1212) and an HLA-Cw08-restricted (Subject 1238) response.


Variant ID.  1031
Epitope Seq.  AAVDLSHFL
Variant Seq.  AAiDLSHFL
Mutations V/I
Epitope Location V3I
HXB2 Location V85I
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was recognized by an HLA-B62- (Subject 1212) and an HLA-Cw08-restricted (Subject 1238) response.


Variant ID.  1032
Epitope Seq.  AAVDLSHFL
Variant Seq.  AAlDLSHFL
Mutations V/L
Epitope Location V3L
HXB2 Location V85L
Mutation Type DR: diminished response
SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was recognized by an HLA-B62- (Subject 1212) response. HLA-Cw08-restricted CTL response (Subject 1238) was detected, but at 114-fold lower avidity.


Variant ID.  1033
Epitope Seq.  AAVDLSHFL
Variant Seq.  gAlDLSHFL
Mutations A/G V/L
Epitope Location A1G V3L
HXB2 Location A83G V85L
Mutation Type DR: diminished response
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. HLA-B62-restricted CTL response (Subject 1212) was detected but at 92-fold lower avidity. HLA-Cw08-restricted CTL response (Subject 1238) was detected by at 25-fold lower avidity.


Variant ID.  1034
Epitope Seq.  AAVDLSHFL
Variant Seq.  gAfDLSHFL
Mutations A/G V/F
Epitope Location A1G V3F
HXB2 Location A83G V85F
Mutation Type DR: diminished response
NSF: non-susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. HLA-B62-restricted CTL response (Subject 1212) was detected but at 166-fold lower avidity. HLA-Cw08-restricted CTL response (Subject 1238) was not detected.

References

Malhotra2007a Uma Malhotra, Fusheng Li, Jessica Nolin, Megan Allison, Hong Zhao, James I. Mullins, Steve Self, and M. Juliana McElrath. Enhanced Detection of Human Immunodeficiency Virus Type 1 (HIV-1) Nef-Specific T Cells Recognizing Multiple Variants in Early HIV-1 Infection. J. Virol., 81(10):5225-5237, May 2007. PubMed ID: 17329342. Show all entries for this paper.


Displaying record number 54546

HXB2 Location  Nef(83-92)   Nef Epitope Map
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Epitope AAVDLSHFLK   Epitope Alignment
Variants
vAlDLSHFLK   susceptible form
Epitope Name AK10
Species (MHC/HLA human(A11)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1035
Epitope Seq.  AAVDLSHFLK
Variant Seq.  vAlDLSHFLK
Mutations A/V V/L
Epitope Location A1V V3L
HXB2 Location A83V V85L
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B.

References

Malhotra2007a Uma Malhotra, Fusheng Li, Jessica Nolin, Megan Allison, Hong Zhao, James I. Mullins, Steve Self, and M. Juliana McElrath. Enhanced Detection of Human Immunodeficiency Virus Type 1 (HIV-1) Nef-Specific T Cells Recognizing Multiple Variants in Early HIV-1 Infection. J. Virol., 81(10):5225-5237, May 2007. PubMed ID: 17329342. Show all entries for this paper.


Displaying record number 54543

HXB2 Location  Nef(105-115)   Nef Epitope Map
View variants at this location
Epitope KRQDILDLWVY   Epitope Alignment
Variants
rRQDILDLWVY   susceptible form
KRQeILDLWVY   susceptible form
rRQeILDLWVY   susceptible form
KRQDILDLWiY   susceptible form
Epitope Name KY11
Species (MHC/HLA human(Cw7)

Variant Details

Showing all: 4 variant(s).


Variant ID.  1036
Epitope Seq.  KRQDILDLWVY
Variant Seq.  rRQDILDLWVY
Mutations K/R
Epitope Location K1R
HXB2 Location K105R
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B.


Variant ID.  1037
Epitope Seq.  KRQDILDLWVY
Variant Seq.  KRQeILDLWVY
Mutations D/E
Epitope Location D4E
HXB2 Location D108E
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B.


Variant ID.  1038
Epitope Seq.  KRQDILDLWVY
Variant Seq.  rRQeILDLWVY
Mutations K/R D/E
Epitope Location K1R D4E
HXB2 Location K105R D108E
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B.


Variant ID.  1039
Epitope Seq.  KRQDILDLWVY
Variant Seq.  KRQDILDLWiY
Mutations V/I
Epitope Location V10I
HXB2 Location V114I
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was found as an autologous sequence in HLA-Cw07-restricted Subject 1188.

References

Malhotra2007a Uma Malhotra, Fusheng Li, Jessica Nolin, Megan Allison, Hong Zhao, James I. Mullins, Steve Self, and M. Juliana McElrath. Enhanced Detection of Human Immunodeficiency Virus Type 1 (HIV-1) Nef-Specific T Cells Recognizing Multiple Variants in Early HIV-1 Infection. J. Virol., 81(10):5225-5237, May 2007. PubMed ID: 17329342. Show all entries for this paper.


Displaying record number 54545

HXB2 Location  Nef(128-137)   Nef Epitope Map
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Epitope TPGPGTRYPL   Epitope Alignment
Variants
TPGPGvRYPL   susceptible form
Epitope Name TL10
Species (MHC/HLA human(B35)

Variant Details

Showing all: 1 variant(s).


Variant ID.  1040
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGvRYPL
Mutations T/V
Epitope Location T6V
HXB2 Location T133V
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B.

References

Malhotra2007a Uma Malhotra, Fusheng Li, Jessica Nolin, Megan Allison, Hong Zhao, James I. Mullins, Steve Self, and M. Juliana McElrath. Enhanced Detection of Human Immunodeficiency Virus Type 1 (HIV-1) Nef-Specific T Cells Recognizing Multiple Variants in Early HIV-1 Infection. J. Virol., 81(10):5225-5237, May 2007. PubMed ID: 17329342. Show all entries for this paper.


Displaying record number 54524

HXB2 Location  Nef(135-143)   Nef Epitope Map
View variants at this location
Epitope YPLTFGWCF   Epitope Alignment
Variants
fPLTFGWCF   susceptible form; subtype-specific susceptible form
YPLcFGWCF   susceptible form; subtype-specific susceptible form
fPLcFGWCF   susceptible form; subtype-specific susceptible form
YPLTFGWCy   susceptible form; subtype-specific susceptible form
YPLTlGWCF   non-susceptible form; susceptible form; subtype-specific non-susceptible form
Epitope Name YF9
Species (MHC/HLA human(B18, B35)

Variant Details

Showing all: 5 variant(s).


Variant ID.  1041
Epitope Seq.  YPLTFGWCF
Variant Seq.  fPLTFGWCF
Mutations Y/F
Epitope Location Y1F
HXB2 Location Y135F
Mutation Type SF: susceptible form
SSF: subtype-specific susceptible form
Epitope Subtype A, B, C
Variant Subtype A, B, C
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was the only HLA-B35-restricted autologous variant sequence found. fPLTFGWCF was recognized by CTL restricted by either HLA-B35 or -B18.


Variant ID.  1042
Epitope Seq.  YPLTFGWCF
Variant Seq.  YPLcFGWCF
Mutations T/C
Epitope Location T4C
HXB2 Location T138C
Mutation Type SF: susceptible form
SSF: subtype-specific susceptible form
Epitope Subtype A, B, C
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was not found as an autologous sequence but was recognized by HLA-B35-restricted CTL.


Variant ID.  1043
Epitope Seq.  YPLTFGWCF
Variant Seq.  fPLcFGWCF
Mutations Y/F T/C
Epitope Location Y1F T4C
HXB2 Location Y135F T138C
Mutation Type SF: susceptible form
SSF: subtype-specific susceptible form
Epitope Subtype A, B, C
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was not found as an autologous sequence but was recognized by HLA-B35-restricted CTL.


Variant ID.  1044
Epitope Seq.  YPLTFGWCF
Variant Seq.  YPLTFGWCy
Mutations F/Y
Epitope Location F9Y
HXB2 Location F143Y
Mutation Type SF: susceptible form
SSF: subtype-specific susceptible form
Epitope Subtype A, B, C
Variant Subtype A, C
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was not found as an autologous sequence but was recognized by HLA-B35- or HLA-B18-restricted CTL.


Variant ID.  1045
Epitope Seq.  YPLTFGWCF
Variant Seq.  YPLTlGWCF
Mutations F/L
Epitope Location F5L
HXB2 Location F139L
Mutation Type NSF: non-susceptible form
SF: susceptible form
SNSF: subtype-specific non-susceptible form
Epitope Subtype A, B, C
Variant Subtype F
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was not found as an autologous sequence and was not recognized by HLA-B35- or HLA-B18- (Subject 1362) restricted CTL.

References

Malhotra2007a Uma Malhotra, Fusheng Li, Jessica Nolin, Megan Allison, Hong Zhao, James I. Mullins, Steve Self, and M. Juliana McElrath. Enhanced Detection of Human Immunodeficiency Virus Type 1 (HIV-1) Nef-Specific T Cells Recognizing Multiple Variants in Early HIV-1 Infection. J. Virol., 81(10):5225-5237, May 2007. PubMed ID: 17329342. Show all entries for this paper.


Displaying record number 54542

HXB2 Location  Nef(183-191)   Nef Epitope Map
View variants at this location
Epitope WKFDSRLAF   Epitope Alignment
Variants
WKFDSRLAl   susceptible form
WrFDSRLAF   susceptible form
WKrDShLAF   susceptible form
WKFDSsLAF   diminished response
WKFDShLAF   diminished response
WKFaSRLAF   observed variant
Epitope Name WF9
Species (MHC/HLA human(B*15:03)

Variant Details

Showing all: 6 variant(s).


Variant ID.  1046
Epitope Seq.  WKFDSRLAF
Variant Seq.  WKFDSRLAl
Mutations F/L
Epitope Location F9L
HXB2 Location F191L
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was recognized by HLA-B1503-restricted CTL (Subject 1188).


Variant ID.  1047
Epitope Seq.  WKFDSRLAF
Variant Seq.  WrFDSRLAF
Mutations K/R
Epitope Location K2R
HXB2 Location K184R
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was recognized by HLA-B1503-restricted CTL (Subject 1188).


Variant ID.  1048
Epitope Seq.  WKFDSRLAF
Variant Seq.  WKrDShLAF
Mutations F/R R/H
Epitope Location F3R R6H
HXB2 Location F185R R188H
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was recognized by HLA-B1503-restricted CTL (Subject 1188).


Variant ID.  1049
Epitope Seq.  WKFDSRLAF
Variant Seq.  WKFDSsLAF
Mutations R/S
Epitope Location R6S
HXB2 Location R188S
Mutation Type DR: diminished response
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was recognized by HLA-B1503-restricted CTL (Subject 1188), though at a 5-fold reduction.


Variant ID.  1050
Epitope Seq.  WKFDSRLAF
Variant Seq.  WKFDShLAF
Mutations R/H
Epitope Location R6H
HXB2 Location R188H
Mutation Type DR: diminished response
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note This variant was found by challenge of 23 subjects with a novel Nef potential T-cell epitope panel in Subtype B. It was recognized by HLA-B1503-restricted CTL (Subject 1188), though at a 10-fold reduction.


Variant ID.  1051
Epitope Seq.  WKFDSRLAF
Variant Seq.  WKFaSRLAF
Mutations D/A
Epitope Location D4A
HXB2 Location D186A
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note This variant was the only WF9 autologous variant found in 1/12 clones from HLA-B1503-restricted Subject 1188. It was not tested.

References

Malhotra2007a Uma Malhotra, Fusheng Li, Jessica Nolin, Megan Allison, Hong Zhao, James I. Mullins, Steve Self, and M. Juliana McElrath. Enhanced Detection of Human Immunodeficiency Virus Type 1 (HIV-1) Nef-Specific T Cells Recognizing Multiple Variants in Early HIV-1 Infection. J. Virol., 81(10):5225-5237, May 2007. PubMed ID: 17329342. Show all entries for this paper.


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