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Clan: Hepadnavirus_epsilon (CL00104)


Hepadnavirus_epsilon clan

The Hepadnavirus_epsilon clan contains the RNA families HBV_epsilon and AHBV_epsilon. Homology between these families has been established in the published literature [1-4].

This clan contains 2 families and the total number of sequence regions in the clan is 5.

Literature references

  1. Kramvis A, Kew MC, J Viral Hepat. 1998;5:357-367: Structure and function of the encapsidation signal of hepadnaviridae. 9857345
  2. Girard FC, Ottink OM, Ampt KA, Tessari M, Wijmenga SS, Nucleic Acids Res. 2007;35:2800-2811.: Thermodynamics and NMR studies on Duck, Heron and Human HBV encapsidation signals. 17430968
  3. Schmid B, Rosler C, Nassal M, J Virol. 2011;85:9300-9313.: A high level of mutation tolerance in the multifunctional sequence encoding the RNA encapsidation signal of an avian hepatitis B virus and slow evolution rate revealed by in vivo infection. 21752921
  4. Nassal M, Virus Res. 2008;134:235-249.: Hepatitis B viruses: reverse transcription a different way. 18339439


This clan contains the following 2 member families:

HBV_epsilon AHBV_epsilon

Secondary structures

This tool allows you to view the secondary structure images of two clan members side-by-side. Choose the family structures using the two drop-down menus below.


The table below shows the number of occurrences of each family throughout the sequence database. In brackets beside each number is the percentage of the total number of sequence hits for the clan that are represented by this family. The rightmost column provides a link to the alignments tab for each family.

Rfam family Num. regions Alignment
AHBV_epsilon (RF01313) 1 (20.0%) View
HBV_epsilon (RF01047) 4 (80.0%) View