- EMDB-11108: The atomic structure of HAdV-F41 at pH 7.4 -
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Basic information
Entry
Database: EMDB / ID: EMD-11108
Title
The atomic structure of HAdV-F41 at pH 7.4
Map data
Full map masked
Sample
Virus: Human adenovirus 41
Protein or peptide: Pre-protein VI
Protein or peptide: Hexon protein
Protein or peptide: Penton protein
Protein or peptide: Core-capsid bridging protein
Protein or peptide: Pre-hexon-linking protein IIIa
Protein or peptide: Hexon-interlacing protein
Protein or peptide: Pre-hexon-linking protein VIII
Protein or peptide: Fiber protein
Protein or peptide: Unknown
Protein or peptide: Unknown
Keywords
HAdV-F41 / virion / icosahedral / VIRUS
Function / homology
Function and homology information
hexon binding / viral capsid, decoration / T=25 icosahedral viral capsid / lysis of host organelle involved in viral entry into host cell / viral procapsid / virion component => GO:0044423 / host cell nucleolus / microtubule-dependent intracellular transport of viral material towards nucleus / viral release from host cell / endocytosis involved in viral entry into host cell ...hexon binding / viral capsid, decoration / T=25 icosahedral viral capsid / lysis of host organelle involved in viral entry into host cell / viral procapsid / virion component => GO:0044423 / host cell nucleolus / microtubule-dependent intracellular transport of viral material towards nucleus / viral release from host cell / endocytosis involved in viral entry into host cell / viral capsid / host cell cytoplasm / symbiont entry into host cell / host cell nucleus / virion attachment to host cell / structural molecule activity / DNA binding Similarity search - Function
Adenovirus core-capsid bridging protein V / Adenovirus minor core protein PV / : / Pre-hexon-linking protein IIIa / Hexon-associated protein IX / Pre-hexon-linking protein IIIa, N-terminal / Hexon-associated protein (IIIa) / Adenovirus hexon-associated protein (IX) / Pre-hexon-linking protein VIII / Adenovirus hexon associated protein, protein VIII ...Adenovirus core-capsid bridging protein V / Adenovirus minor core protein PV / : / Pre-hexon-linking protein IIIa / Hexon-associated protein IX / Pre-hexon-linking protein IIIa, N-terminal / Hexon-associated protein (IIIa) / Adenovirus hexon-associated protein (IX) / Pre-hexon-linking protein VIII / Adenovirus hexon associated protein, protein VIII / Minor capsid protein VI / Minor capsid protein VI / Adenovirus hexon protein / Adenovirus Pll, hexon, N-terminal / Adenovirus Pll, hexon, C-terminal / Hexon, adenovirus major coat protein, N-terminal domain / Hexon, adenovirus major coat protein, C-terminal domain / Adenovirus penton base protein / Adenovirus penton base protein / Group II dsDNA virus coat/capsid protein Similarity search - Domain/homology
Hexon-interlacing protein / Core-capsid bridging protein / Hexon protein / Pre-hexon-linking protein VIII / Pre-protein VI / Hexon-interlacing protein / Pre-hexon-linking protein IIIa / Penton protein Similarity search - Component
Biological species
Human adenovirus 41
Method
single particle reconstruction / cryo EM / Resolution: 3.77 Å
Journal: Sci Adv / Year: 2021 Title: The structure of enteric human adenovirus 41-A leading cause of diarrhea in children. Authors: K Rafie / A Lenman / J Fuchs / A Rajan / N Arnberg / L-A Carlson / Abstract: Human adenovirus (HAdV) types F40 and F41 are a prominent cause of diarrhea and diarrhea-associated mortality in young children worldwide. These enteric HAdVs differ notably in tissue tropism and ...Human adenovirus (HAdV) types F40 and F41 are a prominent cause of diarrhea and diarrhea-associated mortality in young children worldwide. These enteric HAdVs differ notably in tissue tropism and pathogenicity from respiratory and ocular adenoviruses, but the structural basis for this divergence has been unknown. Here, we present the first structure of an enteric HAdV-HAdV-F41-determined by cryo-electron microscopy to a resolution of 3.8 Å. The structure reveals extensive alterations to the virion exterior as compared to nonenteric HAdVs, including a unique arrangement of capsid protein IX. The structure also provides new insights into conserved aspects of HAdV architecture such as a proposed location of core protein V, which links the viral DNA to the capsid, and assembly-induced conformational changes in the penton base protein. Our findings provide the structural basis for adaptation of enteric HAdVs to a fundamentally different tissue tropism.
History
Deposition
May 31, 2020
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Header (metadata) release
Feb 10, 2021
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Map release
Feb 10, 2021
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Update
May 22, 2024
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Current status
May 22, 2024
Processing site: PDBe / Status: Released
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Structure visualization
Movie
Surface view with section colored by density value
Name: Fiber protein / type: protein_or_peptide / ID: 8 Details: belongs to one of the two fibre proteins: P14267 or P16883 Number of copies: 1 / Enantiomer: LEVO
Source (natural)
Organism: Human adenovirus 41
Molecular weight
Theoretical: 899 Da
Sequence
String:
FNPVYPY
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Macromolecule #9: Unknown
Macromolecule
Name: Unknown / type: protein_or_peptide / ID: 9 / Number of copies: 3 / Enantiomer: LEVO
Cryogen name: ETHANE / Chamber humidity: 80 % / Chamber temperature: 295.15 K / Instrument: FEI VITROBOT MARK IV
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Electron microscopy
Microscope
FEI TITAN KRIOS
Specialist optics
Energy filter - Name: GIF Bioquantum / Energy filter - Slit width: 20 eV
Image recording
Film or detector model: GATAN K2 QUANTUM (4k x 4k) / Detector mode: COUNTING / Digitization - Frames/image: 1-40 / Number grids imaged: 2 / Number real images: 6929 / Average electron dose: 1.03 e/Å2
Electron beam
Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
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