+Open data
-Basic information
Entry | Database: PDB / ID: 8aac | ||||||||||||
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Title | African cichlid nackednavirus capsid at pH 7.5 | ||||||||||||
Components | C protein | ||||||||||||
Keywords | VIRAL PROTEIN / T=3 / Capsid protein | ||||||||||||
Function / homology | C protein Function and homology information | ||||||||||||
Biological species | African cichlid nackednavirus | ||||||||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.7 Å | ||||||||||||
Authors | Pfister, S. / Rabl, J. / Boehringer, D. / Meier, B.H. | ||||||||||||
Funding support | European Union, Switzerland, 3items
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Citation | Journal: Nat Commun / Year: 2023 Title: Structural conservation of HBV-like capsid proteins over hundreds of millions of years despite the shift from non-enveloped to enveloped life-style. Authors: Sara Pfister / Julius Rabl / Thomas Wiegand / Simone Mattei / Alexander A Malär / Lauriane Lecoq / Stefan Seitz / Ralf Bartenschlager / Anja Böckmann / Michael Nassal / Daniel Boehringer / Beat H Meier / Abstract: The discovery of nackednaviruses provided new insight into the evolutionary history of the hepatitis B virus (HBV): The common ancestor of HBV and nackednaviruses was non-enveloped and while HBV ...The discovery of nackednaviruses provided new insight into the evolutionary history of the hepatitis B virus (HBV): The common ancestor of HBV and nackednaviruses was non-enveloped and while HBV acquired an envelope during evolution, nackednaviruses remained non-enveloped. We report the capsid structure of the African cichlid nackednavirus (ACNDV), determined by cryo-EM at 3.7 Å resolution. This enables direct comparison with the known capsid structures of HBV and duck HBV, prototypic representatives of the mammalian and avian lineages of the enveloped Hepadnaviridae, respectively. The sequence identity with HBV is 24% and both the ACNDV capsid protein fold and the capsid architecture are very similar to those of the Hepadnaviridae and HBV in particular. Acquisition of the hepadnaviral envelope was thus not accompanied by a major change in capsid structure. Dynamic residues at the spike tip are tentatively assigned by solid-state NMR, while the C-terminal domain is invisible due to dynamics. Solid-state NMR characterization of the capsid structure reveals few conformational differences between the quasi-equivalent subunits of the ACNDV capsid and an overall higher capsid structural disorder compared to HBV. Despite these differences, the capsids of ACNDV and HBV are structurally highly similar despite the 400 million years since their separation. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8aac.cif.gz | 3.8 MB | Display | PDBx/mmCIF format |
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PDB format | pdb8aac.ent.gz | Display | PDB format | |
PDBx/mmJSON format | 8aac.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8aac_validation.pdf.gz | 2.6 MB | Display | wwPDB validaton report |
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Full document | 8aac_full_validation.pdf.gz | 2.7 MB | Display | |
Data in XML | 8aac_validation.xml.gz | 448 KB | Display | |
Data in CIF | 8aac_validation.cif.gz | 724.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/aa/8aac ftp://data.pdbj.org/pub/pdb/validation_reports/aa/8aac | HTTPS FTP |
-Related structure data
Related structure data | 15295MC 8c0oC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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Noncrystallographic symmetry (NCS) | NCS domain:
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