Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 35.37 kDa 
• Atom Count: 2369 
• Residue Count: 280 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

4EJT

Staphylococcus epidermidis TcaR in complex with RNA

• DOI: 10.2210/pdb4EJT/pdb
• NDB: NA1754

• Classification: TRANSCRIPTION REGULATOR/RNA
• Organism(s): Staphylococcus epidermidis RP62A
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-04-07 Released: 2013-06-05 
• Deposition Author(s): Chang, Y.M., Chen, C.K.-M., Wang, A.H.-J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.279 
• R-Value Work: 0.236 

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

• PubMed: 23029170 
• DOI: 10.1371/journal.pone.0045665
• Structures With Same Primary Citation


• 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, 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.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Transcriptional regulator TcaR	A, B	151	Staphylococcus epidermidis RP62A	Mutation(s): 0  Gene Names: tcaR, SERP1949
Find proteins for Q5HLN6 (Staphylococcus epidermidis (strain ATCC 35984 / RP62A)) Go to UniProtKB:  Q5HLN6

Entity ID: 2
Molecule	Chains	Length	Organism
5'-R(*AP*A)-3'	G	2	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.279 
• R-Value Work: 0.236 
• Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.893	α = 90
b = 107.893	β = 90
c = 49.562	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-04-07 
• Released Date: 2013-06-05 
Deposition Author(s): Chang, Y.M., Chen, C.K.-M., Wang, A.H.-J.

Revision History 

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