4EJT

Staphylococcus epidermidis TcaR in complex with RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.236 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Functional studies of ssDNA binding ability of MarR family protein TcaR from Staphylococcus epidermidis.

Chang, Y.M.Chen, C.K.-M.Chang, Y.C.Jeng, W.Y.Hou, M.H.Wang, A.H.-J.

(2012) Plos One 7: e45665-e45665

  • DOI: 10.1371/journal.pone.0045665

  • PubMed Abstract: 
  • The negative transcription regulator of the ica locus, TcaR, regulates proteins involved in the biosynthesis of poly-N-acetylglucosamine (PNAG). Absence of TcaR increases PNAG production and promotes biofilm formation in Staphylococci. Previously, th ...

    The negative transcription regulator of the ica locus, TcaR, regulates proteins involved in the biosynthesis of poly-N-acetylglucosamine (PNAG). Absence of TcaR increases PNAG production and promotes biofilm formation in Staphylococci. Previously, the 3D structure of TcaR in its apo form and its complex structure with several antibiotics have been analyzed. However, the detailed mechanism of multiple antibiotic resistance regulator (MarR) family proteins such as TcaR is unclear and only restricted on the binding ability of double-strand DNA (dsDNA). Here we show by electrophoretic mobility shift assay (EMSA), electron microscopy (EM), circular dichroism (CD), and Biacore analysis that TcaR can interact strongly with single-stranded DNA (ssDNA), thereby identifying a new role in MarR family proteins. Moreover, we show that TcaR preferentially binds 33-mer ssDNA over double-stranded DNA and inhibits viral ssDNA replication. In contrast, such ssDNA binding properties were not observed for other MarR family protein and TetR family protein, suggesting that the results from our studies are not an artifact due to simple charge interactions between TcaR and ssDNA. Overall, these results suggest a novel role for TcaR in regulation of DNA replication. We anticipate that the results of this work will extend our understanding of MarR family protein and broaden the development of new therapeutic strategies for Staphylococci.


    Organizational Affiliation

    Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transcriptional regulator TcaR
A, B
151Staphylococcus epidermidis (strain ATCC 35984 / RP62A)Gene Names: tcaR
Find proteins for Q5HLN6 (Staphylococcus epidermidis (strain ATCC 35984 / RP62A))
Go to UniProtKB:  Q5HLN6
Entity ID: 2
MoleculeChainsLengthOrganism
5'-R(*AP*A)-3'G2N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.236 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 107.893α = 90.00
b = 107.893β = 90.00
c = 49.562γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data scaling
HKL-2000data collection
CNSphasing
CNSrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-06-05
    Type: Initial release