5M48

Coiled coil domain of Rtt103p


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.59 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.247 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure and dynamics of the RNAPII CTDsome with Rtt103.

Jasnovidova, O.Klumpler, T.Kubicek, K.Kalynych, S.Plevka, P.Stefl, R.

(2017) Proc Natl Acad Sci U S A 114: 11133-11138

  • DOI: 10.1073/pnas.1712450114
  • Primary Citation of Related Structures:  
    5M48, 5M9D

  • PubMed Abstract: 
  • RNA polymerase II contains a long C-terminal domain (CTD) that regulates interactions at the site of transcription. The CTD architecture remains poorly understood due to its low sequence complexity, dynamic phosphorylation patterns, and structural variability ...

    RNA polymerase II contains a long C-terminal domain (CTD) that regulates interactions at the site of transcription. The CTD architecture remains poorly understood due to its low sequence complexity, dynamic phosphorylation patterns, and structural variability. We used integrative structural biology to visualize the architecture of the CTD in complex with Rtt103, a 3'-end RNA-processing and transcription termination factor. Rtt103 forms homodimers via its long coiled-coil domain and associates densely on the repetitive sequence of the phosphorylated CTD via its N-terminal CTD-interacting domain. The CTD-Rtt103 association opens the compact random coil structure of the CTD, leading to a beads-on-a-string topology in which the long rod-shaped Rtt103 dimers define the topological and mobility restraints of the entire assembly. These findings underpin the importance of the structural plasticity of the CTD, which is templated by a particular set of CTD-binding proteins.


    Organizational Affiliation

    CEITEC-Central European Institute of Technology, Masaryk University, CZ-62500 Brno, Czech Republic richard.stefl@ceitec.muni.cz.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Regulator of Ty1 transposition protein 103A115Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RTT103YDR289C
UniProt
Find proteins for Q05543 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q05543 
Go to UniProtKB:  Q05543
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ05543
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.59 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.247 
  • Space Group: F 41 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 217.141α = 90
b = 217.141β = 90
c = 217.141γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Union355855
European Molecular Biology Organization3041
European Research Council649030
Czech Science FoundationCzech Republic13-18344S

Revision History  (Full details and data files)

  • Version 1.0: 2017-10-11
    Type: Initial release
  • Version 1.1: 2017-11-08
    Changes: Database references