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Displaying record number 62883

HXB2 Location Pol(838-847) Pol Epitope Map
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SAAVKAACWW

`{tNFT}SAAVKAACWW`		replicative capacity is not abrogated
`{rNFT}SAAVKAACWW`		replicative capacity is not abrogated
`{pNFT}SAAVKAACWW`		replicative capacity reduced
`SnAVKAACWW`		replicative capacity reduced
`SAAVKAACWW{AGIk}`		replicative capacity is not abrogated
`{tNFT}SttVKAACWW`		replicative capacity is not abrogated
`{rNFT}SttVKAACWW`		replicative capacity reduced
`{pNFT}SttVKAACWW`		replicative capacity is not abrogated

Species (MHC/HLA) human

Variant Details

Showing all: 8 variant(s).

Variant ID.	`5065`
Epitope Seq.	`{SNFT}SAAVKAACWW`
Variant Seq.	`{tNFT}SAAVKAACWW`
Mutations	S/T
Epitope Location	S-4T
HXB2 Location	S834T
Mutation Type	RCOK: replicative capacity is not abrogated
Epitope Subtype	C
Variant Subtype	C
Method	Other, Relative replication capacity assay
Note	The introduction of S119T (integrase protein position) onto either wild-type NL4-3 subtype B virus encoding well-defined epitope {SNFT}SttVKAACWW (see CTL variant record #5070) or recombinant NL4-3 virus with subtype C RT-integrase encoding analogous {SNFT}SAAVKAACWW had no effect on replicative capacity. Residue 119 is also located within epitope HTDNGSNF.

Variant ID.	`5066`
Epitope Seq.	`{SNFT}SAAVKAACWW`
Variant Seq.	`{rNFT}SAAVKAACWW`
Mutations	S/R
Epitope Location	S-4R
HXB2 Location	S834R
Mutation Type	RCOK: replicative capacity is not abrogated
Epitope Subtype	C
Variant Subtype	C
Method	Other, Relative replication capacity assay
Note	The introduction of S119R (integrase protein position) onto subtype B wild-type NL4-3 virus carrying best-defined epitope {SNFT}SttVKAACWW did not produce detectable cultured virus (see CTL variant record #5071), but did not affect replicative capacity of NL4-3 recombinant virus encoding subtype C RT-integrase carrying the analogous sequence {SNFT}SAAVKAACWW. Residue 119 is also located within epitope HTDNGSNF.

Variant ID.	`5067`
Epitope Seq.	`{SNFT}SAAVKAACWW`
Variant Seq.	`{pNFT}SAAVKAACWW`
Mutations	S/P
Epitope Location	S-4P
HXB2 Location	S834P
Mutation Type	RCR: replicative capacity reduced
Epitope Subtype	C
Variant Subtype	C
Method	Other, Relative replication capacity assay
Note	The introduction of S119P (integrase protein position) onto subtype B wild-type NL4-3 virus carrying best-defined epitope {SNFT}SttVKAACWW did not affect replicative capacity (see CTL variant record #5072), but did not produce detectable cultured virus on a NL4-3 recombinant virus encoding subtype C RT-integrase carrying the analogous sequence {SNFT}SAAVKAACWW. Residue 119 is also located within epitope HTDNGSNF.

Variant ID.	`5068`
Epitope Seq.	`SAAVKAACWW`
Variant Seq.	`SnAVKAACWW`
Mutations	A/N
Epitope Location	A2N
HXB2 Location	A839N
Mutation Type	RCR: replicative capacity reduced
Epitope Subtype	C
Variant Subtype	C
Method	Other, Relative replication capacity assay
Note	Relative to NL4-3 recombinant virus encoding subtype C wildtype SK-278 RT-integrase, analogous virus encoding integrase variant SnAVKAACWW had a RC reduction of ˜23%. A124N (integrase protein position) also flanks epitope HTDNGSNF.

Variant ID.	`5069`
Epitope Seq.	`SAAVKAACWW{AGIQ}`
Variant Seq.	`SAAVKAACWW{AGIk}`
Mutations	Q/K
Epitope Location	Q+4K
HXB2 Location	Q851K
Mutation Type	RCOK: replicative capacity is not abrogated
Epitope Subtype	C
Variant Subtype	C
Method	Other, Relative replication capacity assay
Note	Relative to subtype B wild-type NL4-3 virus and NL4-3 recombinant virus encoding subtype C wildtype SK-278 RT-integrase, analogous viruses encoding integrase variant SAAVKAACWW{AGIk} did not mediate a significant reduction in RC. Q136K (integrase protein position) is also located within nearby epitope IQQEFGIPY.

Variant ID.	`5070`
Epitope Seq.	`{SNFT}SAAVKAACWW`
Variant Seq.	`{tNFT}SttVKAACWW`
Mutations	A/T A/T S/T
Epitope Location	A2T A3T S-4T
HXB2 Location	A839T A840T S834T
Mutation Type	RCOK: replicative capacity is not abrogated
Epitope Subtype	B
Variant Subtype	B
Method	Other, Relative replication capacity assay
Note	The introduction of S119T (integrase protein position) onto either wild-type NL4-3 subtype B virus encoding well-defined epitope {SNFT}SttVKAACWW or recombinant NL4-3 virus with subtype C RT-integrase encoding analogous {SNFT}SAAVKAACWW (see CTL variant record #5065) had no effect on replicative capacity. Residue 119 is also located within epitope HTDNGSNF.

Variant ID.	`5071`
Epitope Seq.	`{SNFT}SAAVKAACWW`
Variant Seq.	`{rNFT}SttVKAACWW`
Mutations	A/T A/T S/R
Epitope Location	A2T A3T S-4R
HXB2 Location	A839T A840T S834R
Mutation Type	RCR: replicative capacity reduced
Epitope Subtype	B
Variant Subtype	B
Method	Other, Relative replication capacity assay
Note	The introduction of S119R (integrase protein position) onto subtype B wild-type NL4-3 virus carrying best-defined epitope {SNFT}SttVKAACWW did not produce detectable cultured virus, but did not affect replicative capacity of NL4-3 recombinant virus encoding subtype C RT-integrase carrying the analogous sequence {SNFT}SAAVKAACWW (see CTL variant record #5066). Residue 119 is also located within epitope HTDNGSNF.

Variant ID.	`5072`
Epitope Seq.	`{SNFT}SAAVKAACWW`
Variant Seq.	`{pNFT}SttVKAACWW`
Mutations	A/T A/T S/P
Epitope Location	A2T A3T S-4P
HXB2 Location	A839T A840T S834P
Mutation Type	RCOK: replicative capacity is not abrogated
Epitope Subtype	B
Variant Subtype	B
Method	Other, Relative replication capacity assay
Note	The introduction of S119P (integrase protein position) onto subtype B wild-type NL4-3 virus carrying best-defined epitope {SNFT}SttVKAACWW did not affect replicative capacity, but did not produce detectable cultured virus on a NL4-3 recombinant virus encoding subtype C RT-integrase carrying the analogous sequence {SNFT}SAAVKAACWW (see CTL variant record #5067). Residue 119 is also located within epitope HTDNGSNF.

References

Ojwach2021 Doty B. A. Ojwach, Paradise Madlala, Michelle Gordon, Thumbi Ndung'u, and Jaclyn K. Mann. Vulnerable targets in HIV-1 Pol for attenuation-based vaccine design. Virology, 554:1-8 doi, Feb 2021. PubMed ID: 33316731 Show all entries for this paper.