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HIV sequence database



Variable Region Characteristics

Purpose: Variable Region Characteristics analyzes protein sequences for V1, V2, V3, V4, V5 lengths, glycosylations, and net charge. For details, see the explanation.

Input
Paste alignment icon

[Sample Input]
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Options
Net charge icon KRH = +, DE = -       KR = +, DE = -
Specify regions icon Select HIV-1 variable regions (for HIV-1 ENV alignment that includes HXB2)
V1: Full loop (130-158)*    Hypervariable region (132-152)
V2: Full loop (157-197)*    Hypervariable region (185-190)
V1+V2: Full loop (130-157 + 158-197)*    Hypervariable region (132-152 + 185-190)
V3: Full loop (295-332)*         (loop not hypervariable)
V4: Full loop (385-418)    Hypervariable region (396-410)
V5: Full loop (459-470)*    Hypervariable region (460-465)
* Results for V1, V2, V3, and V5 include one position immediately before and another immediately after the region so that glycosylation sites at the boundaries are counted.
Use alignment positions to
Use reference positions to
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last modified: Fri Jun 7 14:03 2019


Questions or comments? Contact us at seq-info@lanl.gov.

 
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