Kim, Sanguk, Ph.D.

Associate Professor
Department of Life Science
Division of Molecular and Life Sciences
Bioinformatics

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E-mail sukim@postech.ac.kr
Phone +82-54-279-2348(office)
          +82-54-279-8171(lab.)
Laboratory Structural Bioinformatics Laboratory

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Profile |  Research Interests |  Selected Publications

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2002
2002-2005

Ph.D., Molecular Biophysics, Florida State University
Post-doc, Univ. of California, Los Angeles

 

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dia_red.gif Research Interests

Computational structural biology and bioinformatics - Structural and functional characterization of membrane proteins - Development of prediction methods for protein structure and protein-protein interaction Structural Bioinformatics of Membrane Proteins Membrane proteins serve many important cellular functions including cell-cell communications, signal transductions, and ion/nutrient transportations. Defects in membrane proteins are related to the diseases in cancer, heart diseases, immunological and neurological disorders. Thus, improving our understanding of membrane protein structure and function should have a significant impact on medicine. In spite of their importance, our understanding of membrane protein is limited due to the difficulties in current methods of structural biology. Thus, effective structure prediction methods combined with designed biophysical and biochemical experiments should have an enormous impact on our understanding of membrane protein structure and function. Keywords from research publications Channel architecture, open-close & ion transport mechanism, functional & structural motif, drug binding, cell surface receptor, transmembrane cell signaling, GPCR, receptor tyrosine kinase, integrin, cell adhesion molecules, Alzheimer amyloid pore, glycine zipper, mechanosensitive channel, and tight junction protein   

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dia_red.gif Selected Publications

  1. Park S, Yang YS, Shin YE, Park J, Jang SK, Kim S. Protein localization as a principal feature of the etiology and comorbidity of genetic diseases. Mol Sys Biol. 2011 May 24;7:494
  2. Lee J, Lee H, Kim J, Lee S, Kim DH, Kim S, Hwang I. Both the Hydrophobicity and a Positively Charged Region Flanking the C-Terminal Region of the Transmembrane Domain of Signal-Anchored Proteins Play Critical Roles in Determining Their Targeting Specificity to the Endoplasmic Reticulum or Endosymbiotic Organelles in Arabidopsis Cells. Plant Cell. 2011 Apr 22. [Epub ahead of print]
  3. Jeon J, Nam HJ, Choi Y, Yang JS, Hwang J, Kim S. Molecular evolution of protein conformational changes revealed by a network of evolutionarily-coupled residues. Mol Biol Evol. 2011 Apr 6. [Epub ahead of print]
  4. Yang JS+, Kim JT+, Jeon J, Park HS, Kang GH, Park KS, Lee HK, Kim S*, Cho YM*. Changes in Hepatic Gene Expression upon Oral Administration of Taurine-Conjugated Ursodeoxycholic Acid in ob/ob Mice. PLoS One. 2010 Nov 5;5(11):e13858
  5. Kim JK, Lim S, Kim J, Kim S, Kim JH, Ryu SH, Suh PG. Subtype-specific roles of phospholipase C-β via differential interactions with PDZ domain proteins. Adv Enzyme Regul. 2010 Oct 28 [Epub ahead of print]
  6. Choi YS+, Han SK+, Kim J, Yang JS, Jeon J, Ryu SH, Kim S. ConPlex: a sever for the evolutionary conservation analysis of protein complex structures. Nucleic Acid Res. 2010 Apr 30 [Epub ahead of print]
  7. Cho BA, Cho NH, Min CK, Kim SY, Yang JS, Lee JR, Jung JW, Lee WC, Kim K, Lee MK, Kim S, Kim KP, Seong SY, Choi MS, Kim IS. Global gene expression profile of Orientia tsutsugamushi. Proteomics. 2010 Feb 22: 10(8):1699-1715
  8. Lee GH, Ahn T, Kim DS, Park SJ, Lee YC, Yoo WH, Jung SJ, Yang JS, Kim S, Muhlrad A, Chae SW, Kim HR, Chae HJ. Bax Inhibitor-1 increases cell adhesion through actin polymerization: The involvement of calcium and actin binding. Mol Cell Biol. 2010 Apr:30(7):1800-1813.
  9. Nam HJ, Jeon J, Kim S. Bioinformatic approaches for the structure and function of membrane proteins. BMB Rep. 2009 Nov 30;42(11):697-704.
  10. Jeon J, Yang JS, Kim S. Integration of evolutionary features for the identification of functionally important residues in major facilitator superfamily transporters. PLoS Comput Biol. 2009 Oct;5(10):e1000522. Epub 2009 Oct 2.
  11. Park S, Yang JS, Jang SK, Kim S. Construction of functional interaction networks through consensus localization predictions of the human proteome. J Proteome Res. 2009 Jul;8(7):3367-76.
  12. Choi YS, Yang JS, Choi Y, Ryu SH, Kim S. Evolutionary conservation in multiple faces of protein interaction. Proteins. 2009 Feb 27; 77(1):14-25.
  13. Min CK, Bang SY, Cho BA, Choi YH, Yang JS, Lee SH, Seong SY, Kim KW, Kim S, Jung JU, Choi MS, Kim IS, Cho NH. Role of Amphipathic Helix of a Herpesviral Protein in Membrane Deformation and T Cell Receptor Downregulation. PLoS Pathog. 2008 Nov;4(11):e1000209. Epub 2008 Nov 21.
  14. Lee DW+, Kim JK+, Lee S, Choi S, Kim S*, Hwang I*. Arabidopsis nuclear-encoded plastid transit peptides contain multiple sequence subgroups with distinctive chloroplast-targeting sequence motifs. Plant Cell. 2008 Jun;20(6):1603-1622.
  15. Min C, Yang JS, Kim S, Choi M, Kim I, Cho N. Genome-based construction of the metabolic pathways of Orientia tsutsugamushi and comparative analysis within the Rickettsiales order. Comparative and Functional Genomics. 2008:623145
  16. Lim DW, Kim J, Kim S, Carthew RW, Lee YS. Functional analysis of dicer-2 missense mutations in the siRNA pathway of Drosophila. Biochem Biophys Res Commun. 2008 Jul 4;371(3):525-30. Epub 2008 Apr 30.
  17. Kim YY, Kim DY, Shim D, Song WY, Lee J, Schroeder JI, Kim S, Moran N, Lee Y. Expression of the Novel Wheat Gene TM20 Confers Enhanced Cadmium Tolerance to Bakers' Yeast. J Biol Chem. 2008 Jun 6;283(23):15893-15902. Epub 2008 Apr 14.
  18. Kim HR, Lee GH, Ha KC, Ahn T, Lee BJ, Cho SG, Kim S, Seo YR, Shin YJ, Chae SW, Reed JC, Chae HJ. Bax Inhibitor-1 Is a pH-dependent Regulator of Ca2+ Channel Activity in the Endoplasmic Reticulum. J Biol Chem. 2008 Jun 6;283(23):15946-15955. Epub 2008 Mar 31.
  19. Page RC, Kim S, Cross TA. Transmembrane helix uniformity examined by spectral mapping of torsion angles. Structure 2008. May 07;16: 787-797
  20. Choi S*, Jeon J*, Yang JS, Kim S. Common occurrence of internal repeat symmetry in membrane proteins Proteins. 2008 Apr;71(1):68-80.
  21. Gorman PM, Kim S, Guo M, Melnyk R, McLaurin J, Fraser PE, Bowie JU, Chakrabartty A. Dimerization of the transmembrane domain of amyloid precursor proteins and familial Alzheimer's disease mutants. BMC Neurosci. 2008 Jan 30;9(1):17

 

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Division of Molecular & Life Sciences| POSTECH