2ZCN
Crystal structure of IcaR, a repressor of the TetR family
Summary for 2ZCN
| Entry DOI | 10.2210/pdb2zcn/pdb |
| Related | 2ZCM |
| Descriptor | Biofilm operon icaABCD HTH-type negative transcriptional regulator icaR (2 entities in total) |
| Functional Keywords | helix-turn-helix, biofilm, tetr family, repressor, polysaccharide intercellular adhesin (pia), dna-binding, transcription, transcription regulation |
| Biological source | Staphylococcus epidermidis |
| Total number of polymer chains | 4 |
| Total formula weight | 92632.80 |
| Authors | Jeng, W.Y.,Ko, T.P.,Liu, C.I.,Guo, R.T.,Liu, C.L.,Wang, A.H.J. (deposition date: 2007-11-10, release date: 2008-02-05, Last modification date: 2023-11-01) |
| Primary citation | Jeng, W.Y.,Ko, T.P.,Liu, C.I.,Guo, R.T.,Liu, C.L.,Shr, H.L.,Wang, A.H.J. Crystal structure of IcaR, a repressor of the TetR family implicated in biofilm formation in Staphylococcus epidermidis Nucleic Acids Res., 36:1567-1577, 2008 Cited by PubMed Abstract: Expression of the gene cluster icaADBC is necessary for biofilm production in Staphylococcus epidermidis. The ica operon is negatively controlled by the repressor IcaR. Here, the crystal structure of IcaR was determined and the refined structure revealed a homodimer comprising entirely alpha-helices, typical of the tetracycline repressor protein family for gene regulations. The N-terminal domain contains a conserved helix-turn-helix DNA-binding motif with some conformational variations, indicating flexibility in this region. The C-terminal domain shows a complementary surface charge distribution about the dyad axis, ideal for efficient and specific dimer formation. The results of the electrophoretic mobility shift assay and isothermal titration calorimetry suggested that a 28 bp core segment of the ica operator is implicated in the cooperative binding of two IcaR dimers on opposite sides of the duplex DNA. Computer modeling based on the known DNA-complex structure of QacR and site-specific mutagenesis experiments showed that direct protein-DNA interactions are mostly conserved, but with slight variations for recognizing the different sequences. By interfering with the binding of IcaR to DNA, aminoglycoside gentamicin and other antibiotics may activate the icaADBC genes and elicit biofilm production in S. epidermidis, and likely S. aureus, as a defense mechanism. PubMed: 18208836DOI: 10.1093/nar/gkm1176 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.9 Å) |
Structure validation
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