8R0S

Structure of reverse transcriptase from Cauliflower Mosaic Virus in complex with RNA/DNA hybrid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.217 

Starting Model: in silico
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This is version 1.1 of the entry. See complete history


Literature

Structural and biochemical characterization of cauliflower mosaic virus reverse transcriptase.

Prabaharan, C.Figiel, M.Szczepanowski, R.H.Skowronek, K.Zajko, W.Thangaraj, V.Chamera, S.Nowak, E.Nowotny, M.

(2024) J Biol Chem 300: 107555-107555

  • DOI: https://doi.org/10.1016/j.jbc.2024.107555
  • Primary Citation of Related Structures:  
    8R0S

  • PubMed Abstract: 

    Reverse transcriptases (RTs) are enzymes with DNA polymerase and RNase H activities. They convert single-stranded RNA into double-stranded DNA and are key enzymes for the replication of retroviruses and retroelements. Caulimoviridae is a major family of plant-infecting viruses. Caulimoviruses have a circular dsDNA genome that is replicated by reverse transcription, but in contrast to retroviruses, they lack integrase. Caulimoviruses are related to Ty3 retroelements. Ty3 RT has been extensively studied structurally and biochemically, but corresponding information for caulimoviral RTs is unavailable. In the present study, we report the first crystal structure of cauliflower mosaic virus (CaMV) RT in complex with a duplex made of RNA and DNA strands (RNA/DNA hybrid). CaMV RT forms a monomeric complex with the hybrid, unlike Ty3 RT, which does so as a dimer. Results of the RNA-dependent DNA polymerase and DNA-dependent DNA polymerase activity assays showed that individual CaMV RT molecules are able to perform full polymerase functions. However, our analyses showed that an additional CaMV RT molecule needs to transiently associate with a polymerase-competent RT molecule to execute RNase H cuts of the RNA strand. Collectively, our results provide details into the structure and function of CaMV RT and describe how the enzyme compares to other related RTs.


  • Organizational Affiliation

    Laboratory of Protein Structure, International Institute of Molecular and Cell Biology in Warsaw, Poland.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Enzymatic polyprotein577Cauliflower mosaic virusMutation(s): 0 
EC: 2.7.7.49
UniProt
Find proteins for A0A2D2PYL0 (Cauliflower mosaic virus)
Explore A0A2D2PYL0 
Go to UniProtKB:  A0A2D2PYL0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2D2PYL0
Sequence Annotations
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  • Reference Sequence

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Entity ID: 2
MoleculeChains LengthOrganismImage
RNA (5'-R(*GP*UP*CP*CP*AP*GP*CP*AP*GP*UP*GP*CP*GP*UP*AP*GP*C)-3')B [auth C]17synthetic gene
Sequence Annotations
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  • Reference Sequence

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Entity ID: 3
MoleculeChains LengthOrganismImage
DNA (5'-D(*GP*CP*TP*AP*CP*GP*CP*AP*CP*TP*GP*CP*TP*GP*GP*A)-3')C [auth D]16synthetic gene
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.217 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.82α = 90
b = 140.52β = 90
c = 52.58γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Polish National Science CentrePolandUMO-2016/21/B/NZ1/02757

Revision History  (Full details and data files)

  • Version 1.0: 2024-07-24
    Type: Initial release
  • Version 1.1: 2024-08-21
    Changes: Database references