6QI5

Near Atomic Structure of an Atadenovirus Shows a possible gene duplication event and Intergenera Variations in Cementing Proteins


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.2 of the entry. See complete history


Literature

Near-atomic structure of an atadenovirus reveals a conserved capsid-binding motif and intergenera variations in cementing proteins.

Marabini, R.Condezo, G.N.Krupovic, M.Menendez-Conejero, R.Gomez-Blanco, J.San Martin, C.

(2021) Sci Adv 7

  • DOI: https://doi.org/10.1126/sciadv.abe6008
  • Primary Citation of Related Structures:  
    6QI5

  • PubMed Abstract: 

    Of five known adenovirus genera, high-resolution structures are available only for mammalian-infecting mastadenoviruses. We present the first high-resolution structure of an adenovirus with nonmammalian host: lizard atadenovirus LAdV-2. We find a large conformational difference in the internal vertex protein IIIa between mast- and atadenoviruses, induced by the presence of an extended polypeptide. This polypeptide, and α-helical clusters beneath the facet, likely correspond to genus-specific proteins LH2 and p32k. Another genus-specific protein, LH3, with a fold typical of bacteriophage tailspikes, contacts the capsid surface via a triskelion structure identical to that used by mastadenovirus protein IX, revealing a conserved capsid-binding motif and an ancient gene duplication event. Our data also suggest that mastadenovirus E1B-55 K was exapted from the atadenovirus-like LH3 protein. This work provides new information on the evolution of adenoviruses, emphasizing the importance of minor coat proteins for determining specific physicochemical properties of virions and most likely their tropism.


  • Organizational Affiliation

    Escuela Politécnica Superior, Universidad Autónoma de Madrid, Francisco Tomás y Valiente 11, 28049 Madrid, Spain.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Hexon protein909Lizard adenovirus 2Mutation(s): 0 
UniProt
Find proteins for A0A076FYV7 (Lizard adenovirus 2)
Explore A0A076FYV7 
Go to UniProtKB:  A0A076FYV7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A076FYV7
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Protein LH3M [auth S],
N [auth T],
O [auth R],
P [auth Q]
370Lizard adenovirus 2Mutation(s): 0 
UniProt
Find proteins for A0A076FYU8 (Lizard adenovirus 2)
Explore A0A076FYU8 
Go to UniProtKB:  A0A076FYU8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A076FYU8
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Pre-hexon-linking protein VIIIQ [auth P],
R [auth O]
278Lizard adenovirus 2Mutation(s): 0 
UniProt
Find proteins for A0A076FT36 (Lizard adenovirus 2)
Explore A0A076FT36 
Go to UniProtKB:  A0A076FT36
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UniProt GroupA0A076FT36
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
PIIIaS [auth N]609Lizard adenovirus 2Mutation(s): 0 
UniProt
Find proteins for A0A076FYV2 (Lizard adenovirus 2)
Explore A0A076FYV2 
Go to UniProtKB:  A0A076FYV2
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UniProt GroupA0A076FYV2
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Penton proteinT [auth M]451Lizard adenovirus 2Mutation(s): 0 
UniProt
Find proteins for A0A076FT28 (Lizard adenovirus 2)
Explore A0A076FT28 
Go to UniProtKB:  A0A076FT28
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UniProt GroupA0A076FT28
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION
RECONSTRUCTIONScipion
MODEL REFINEMENTCoot
MODEL REFINEMENTPHENIX
MODEL REFINEMENTREFMAC
MODEL REFINEMENTScipion

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-08-05
    Type: Initial release
  • Version 1.1: 2021-04-14
    Changes: Database references
  • Version 1.2: 2024-05-15
    Changes: Data collection, Database references, Derived calculations