Avihepadnavirus (taxid:10437)

VIRION

Enveloped, spherical. Diameter from about 42nm. Icosahedric capsid with a T=4 symmetry.

GENOME

Partially dsDNA circular genome, about 3.2 kb in size. Encodes for 4 proteins.

GENE EXPRESSION

The minichromosome is transcribed by cellular RNA polymerase II under the control of three to four promoters (the core, pre-S1, pre-S2/S promoters, and the X promoter in mammalian viruses) and two enhancer regions (ENH1 and ENH2). The pre-genomic RNA is alternatively spliced. The unspliced form is exported from the nucleus through a PRE motif possibly by capsid protein. The Polymerase and short S proteins are expressed by leaky scanning from the pg mRNA and the S mRNA respectively.

ENZYMES

• Reverse transcriptase
  • RNA-dependent DNA polymerase [P]
  • DNA-dependent DNA polymerase [P]
  • Protein-primed terminal transferase [P]
• RNAse H [P]

REPLICATION

NUCLEO-CYTOPLASMIC

1. Virus attaches to host receptors through major surface antigen and enters the cell by an unknown mechanism.
2. Relaxed circular DNA (RC-DNA) and capsid are transported via microtubules to the nucleus where DNA is released through the nuclear pore, and repaired to form covalently closed circular DNA (cccDNA).
3. Transcription by RNA polymerase II of the pregenomic RNA (pgRNA) and subgenomic mRNAs, inducing synthesis of all the viral proteins.
4. pgRNA is encapsidated, together with the P protein, and reverse-transcribed inside the nucleocapsid in (-)DNA covalently linked to P protein.
5. (+)DNA synthesis from the (-)DNA template generates new RC-DNA.
6. Transport to the nucleus of new RC-DNA leads to cccDNA amplification; alternatively, the RC-DNA containing nucleocapsids are enveloped at the ER, and new virions are released by exocytosis.

This page links to files of predicted protein structures created in 2024 by Jason Nomburg, Nathan Price and Jennifer A. Doudna (affiliation/logo) (publication/bioRxiv) using Colabfold . There are two files per structure: .pdb and .scores.json

Download all data:

Avihepadnavirus.zip

Download individual structures:

precore_core_protein__YP_009389522__Tinamou_hepatitis_B_virus__2018685
pdb
scores.json

unnamed_protein_product__YP_004956863__Parrot_hepatitis_B_virus__1128118
pdb
scores.json

core_protein__YP_009389523__Tinamou_hepatitis_B_virus__2018685
pdb
scores.json

unnamed_protein_product__YP_004956862__Parrot_hepatitis_B_virus__1128118
pdb
scores.json

core_antigen__YP_031694__Snow_goose_hepatitis_B_virus__89623
pdb
scores.json

core_protein__YP_024973__Sheldgoose_hepatitis_B_virus__259898
pdb
scores.json

preC_antigen__YP_031693__Snow_goose_hepatitis_B_virus__89623
pdb
scores.json

precore_protein__YP_024972__Sheldgoose_hepatitis_B_virus__259898
pdb
scores.json

unnamed_protein_product__YP_004956866__Parrot_hepatitis_B_virus__1128118
pdb
scores.json

S_protein__YP_024976__Sheldgoose_hepatitis_B_virus__259898
pdb
scores.json

S_antigen__YP_031697__Snow_goose_hepatitis_B_virus__89623
pdb
scores.json

S_protein__YP_009389526__Tinamou_hepatitis_B_virus__2018685
pdb
scores.json

unnamed_protein_product__YP_004956865__Parrot_hepatitis_B_virus__1128118
pdb
scores.json

preS_antigen__YP_031696__Snow_goose_hepatitis_B_virus__89623
pdb
scores.json

large_S_protein__YP_009389525__Tinamou_hepatitis_B_virus__2018685
pdb
scores.json

preS_protein__YP_024975__Sheldgoose_hepatitis_B_virus__259898
pdb
scores.json

DNA_polymerase__YP_009389524__Tinamou_hepatitis_B_virus__2018685
pdb
scores.json

polymerase_protein__YP_024974__Sheldgoose_hepatitis_B_virus__259898
pdb
scores.json

DNA-directed_DNA_polymerase__YP_031695__Snow_goose_hepatitis_B_virus__89623
pdb
scores.json

unnamed_protein_product__YP_004956864__Parrot_hepatitis_B_virus__1128118
pdb
scores.json