5X70

Crystal structure of Rice Dwarf Virus P5 in complex with a ssRNA oligomer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.223 

wwPDB Validation   3D Report Full Report



Literature

Crystal structure of capping enzyme from Rice dwarf virus

Nakamichi, Y.Higashiura, A.Narita, H.Hagiwara, K.Uehara-Ichiki, T.Omura, T.Nakagawa, A.

To be published.

Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
mRNA capping enzyme P5ABCD804Rice dwarf virus (isolate O)Mutation(s): 0 
EC: 2.7.7.50
Find proteins for P14583 (Rice dwarf virus (isolate Akita))
Explore P14583 
Go to UniProtKB:  P14583
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(P*GP*GP*CP*AP*AP*A)-3')E, G6Rice dwarf virus
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 3.30 Å
    • R-Value Free: 0.269 
    • R-Value Work: 0.220 
    • R-Value Observed: 0.223 
    • Space Group: P 1
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 80.754α = 104.74
    b = 80.657β = 104
    c = 145.734γ = 95.29
    Software Package:
    Software NamePurpose
    PHENIXrefinement
    HKL-2000data reduction
    HKL-2000data scaling
    MOLREPphasing

    Structure Validation

    View Full Validation Report



    Entry History & Funding Information

    Deposition Data


    Funding OrganizationLocationGrant Number
    JSPSJapanJP25251009

    Revision History 

    • Version 1.0: 2018-02-28
      Type: Initial release