4ME2

Crystal Structure of THA8 protein from Brachypodium distachyon


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.212 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis for RNA recognition by a dimeric PPR-protein complex.

Ke, J.Chen, R.Z.Ban, T.Zhou, X.E.Gu, X.Tan, M.H.Chen, C.Kang, Y.Brunzelle, J.S.Zhu, J.K.Melcher, K.Xu, H.E.

(2013) Nat.Struct.Mol.Biol. 20: 1377-1382

  • DOI: 10.1038/nsmb.2710
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Thylakoid assembly 8 (THA8) is a pentatricopeptide repeat (PPR) RNA-binding protein required for the splicing of the transcript of ycf3, a gene involved in chloroplast thylakoid-membrane biogenesis. Here we report the identification of multiple THA8- ...

    Thylakoid assembly 8 (THA8) is a pentatricopeptide repeat (PPR) RNA-binding protein required for the splicing of the transcript of ycf3, a gene involved in chloroplast thylakoid-membrane biogenesis. Here we report the identification of multiple THA8-binding sites in the ycf3 intron and present crystal structures of Brachypodium distachyon THA8 either free of RNA or bound to two of the identified RNA sites. The apostructure reveals a THA8 monomer with five tandem PPR repeats arranged in a planar fold. The complexes of THA8 bound to the two short RNA fragments surprisingly reveal asymmetric THA8 dimers with the bound RNAs at the dimeric interface. RNA binding induces THA8 dimerization, with a conserved G nucleotide of the bound RNAs making extensive contacts with both monomers. Together, these results establish a new model of RNA recognition by RNA-induced formation of an asymmetric dimer of a PPR protein.


    Organizational Affiliation

    1] Laboratory of Structural Sciences, Center for Structural Biology and Drug Discovery, Van Andel Research Institute, Grand Rapids, Michigan, USA. [2].




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Uncharacterized protein
A
257Brachypodium distachyonMutation(s): 0 
Gene Names: 100843557
Find proteins for I1HB13 (Brachypodium distachyon)
Go to UniProtKB:  I1HB13
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.212 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 73.649α = 90.00
b = 73.649β = 90.00
c = 61.862γ = 120.00
Software Package:
Software NamePurpose
SHELXmodel building
HKL-2000data scaling
SHELXphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-10-30
    Type: Initial release
  • Version 1.1: 2013-11-27
    Type: Database references
  • Version 1.2: 2013-12-18
    Type: Database references