Journal of the Korean Magnetic Resonance Society (한국자기공명학회논문지)

Korean Magnetic Resonance Society (한국자기공명학회)
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Structure Determination of Syndecan-4 Transmembrane Domain using PISA Wheel Pattern and Molecular Dynamics simulation

  • Choi, Sung-Sub (Department of Chemistry and Protein Research center for Bio-Industry, Hankuk University of Foreign Studies) ;
  • Jeong, Ji-Ho (Department of Chemistry and Protein Research center for Bio-Industry, Hankuk University of Foreign Studies) ;
  • Kim, Ji-Sun (Department of Chemistry and Protein Research center for Bio-Industry, Hankuk University of Foreign Studies) ;
  • Kim, Yongae (Department of Chemistry and Protein Research center for Bio-Industry, Hankuk University of Foreign Studies)
  • Received : 2014.10.01
  • Accepted : 2014.12.11
  • Published : 2014.12.20
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Abstract

Human transmembrane proteins (hTMPs) are closely related to transport, channel formation, signaling, cell to cell interaction, so they are the crucial target of modern medicinal drugs. In order to study the structure and function of these hTMPs, it is important to prepare reasonable amounts of proteins. However, their preparation is seriously difficult and time-consuming due to insufficient yields and low solubility of hTMPs. We tried to produce large amounts of Syndecan-4 transmembrane domain (Syd4-TM) that is related to the healing wounds and tumor for a long time. In this study, we performed the structure determination of Syd4-TM combining the Polarity Index at Slanted Angle (PISA) wheel pattern analysis based on $^{15}N-^1H$ 2D SAMPI-4 solid-state NMR of expressed Syd4-TM and Molecular Dynamics (MD) simulation using Discovery Studio 3.1.

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