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Molecular Cloning of cDNA Encoding a Putative Eugenol Synthase in Tomato (Solanum lycopersicum 'Micro-Tom') and Prediction of 3D Structure and Physiochemical Properties  

Kang, Seung-Won (BET Research Institute, Chung-Ang University)
Seo, Sang-Gyu (Natural Science Research Institute, University of Seoul)
Lee, Tai-Ho (Department of Integrative Plant Science, Chung-Ang University)
Lee, Gung-Pyo (Department of Integrative Plant Science, Chung-Ang University)
Publication Information
Journal of agriculture & life science / v.46, no.4, 2012 , pp. 9-20 More about this Journal
Abstract
Eugenol is a volatile compound synthesized by eugenol synthase in various plants and belongs to phenylpropene compounds. However, characteristics of eugenol synthase in tomato has not been known. Therefore, we cloned a full length cDNA of a putative eugenol synthase from tomato 'Micro-Tom' using rapid amplification of cDNA ends (RACE) technique and named a clone SlEGS. Open reading frame of SlEGS was 921bp long and its deduced amino acid sequence was 307bp. The BLAST analysis indicated that SlEGS shared high similarity with PhEGS1 (67.1%) and CbEGS2 (69.4%). Amino acid composition of SlEGS was determined by CLC genomics workbench tool and 3D structure of SlEGS was constructed by homology modeling using Swiss-PDB viewer and validated using PROCHECK and ProSA-web tool. In addition, the physiochemical properties of SlEGS was evaluated using ExPASy's ProtParam tool. Molecular weight was 33.93kDa and isoelectric point was 5.85 showing acidic nature. Other properties such as extinction coefficient, instability index, aliphatic index, and grand average hydropathy was also analyzed.
Keywords
Eugenol synthase; Full length cDNA; Homology modeling; Tomato;
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