3KP3

Staphylococcus epidermidis in complex with ampicillin

Summary for 3KP3

• Entry DOI: 10.2210/pdb3kp3/pdb
• Related: 3KP2 3KP4 3KP5 3KP6 3KP7
• Descriptor: Transcriptional regulator TcaR, (2S,5R,6R)-6-{[(2R)-2-AMINO-2-PHENYLETHANOYL]AMINO}-3,3-DIMETHYL-7-OXO-4-THIA-1-AZABICYCLO[3.2.0]HEPTANE-2-CARBOXYLIC ACID (3 entities in total)
• Functional Keywords: multiple drug resistance, biofilm, transcription regulation, dna binding, antibiotics, dna-binding, transcription, transcription regulator-antibiotic complex, transcription regulator/antibiotic
• Biological source: Staphylococcus epidermidis RP62A
• Total number of polymer chains: 2
• Total formula weight: 35455.20

Authors

Chang, Y.M.,Chen, C.K.,Wang, A.H. (deposition date: 2009-11-15, release date: 2010-06-09, Last modification date: 2023-11-01)

Primary citation

Chang, Y.M.,Jeng, W.Y.,Ko, T.P.,Yeh, Y.J.,Chen, C.K.,Wang, A.H.
Structural study of TcaR and its complexes with multiple antibiotics from Staphylococcus epidermidis.
Proc.Natl.Acad.Sci.USA, 107:8617-8622, 2010

PubMed Abstract: TcaR and IcaR are a weak and a strong negative regulator of transcription of the ica locus, respectively, and their presence prevents the poly-N-acetylglucosamine production and biofilm formation in Staphylococcus epidermidis. Although TcaR was shown to interact with the ica promoter, the precise binding region and the mechanism of interaction remained unclear. Here we present the 3D structure of TcaR in its apo form and in complex with salicylate as well as several aminoglycoside and beta-lactam antibiotics. A comparison of the native and complex TcaR structures indicates that the mechanism of regulation involves a large conformational change in the DNA-binding lobe. Here, we deduced the consensus binding sequence of two [ approximately TTNNAA] hexamers embedded in a 16 bp sequence for a TcaR dimer. Six TcaR dimers bind specifically to three approximately 33 bp segments close to the IcaR binding region with varying affinities, and their repressor activity is directly interfered by salicylate and different classes of natural antimicrobial compounds. We also found in this study that the antimicrobial compounds we tested were shown not only to inhibit TcaR-DNA interaction but also to further induce biofilm formation in S. epidermidis in our in vivo assay. The results support a general mechanism for antibiotics in regulating TcaR-DNA interaction and thereby help understand the effect of antibiotic exposure on bacterial antibiotic resistance through biofilm formation.

PubMed: 20421503
DOI: 10.1073/pnas.0913302107

Experimental method

X-RAY DIFFRACTION (3.2 Å)