Publications

2010

Su, Yang, C.-C, Wang, Y.-T., Hsiao, Y. Y., Doudeva, L. G., Kuo, P.-H., Chow, S. Y. and Yuan*, H. S.
Structural and biochemical characterization of CRN-5 and Rrp46: an exosome component participating in apoptotic DNA degradation.
RNA 2010. 16: 1748-1759

2009

Su, M.-W., Lin, H.-M., Yuan*, H. S. and Chu*, W.-C
Categorizing host-dependent RNA viruses by principal component analysis of their coden usage preferences.
J. Comp. Biol. 16, 1539-1547.

Wang, Y.-T., Wright, J, D., Doudeva, L. G., H -C., Lim*, C. and Yuan*, H. S. 
Redesign of high-affinity nonspecifid nucleases with altered sequence preference.
J. Am. Chem. Soc. 131, 17345-17353.

Hsiao, Y. Y., Nakagawa, A., Shi, Z., Mitani, S., Xue, D. and Yuan*, H. S. 
Crystal structure of CRN-4: implications for domain function in apoptotic DNA degradation. 
Mol. Cell. Biol. 2009, 29, 2, 448-457

 

Lin, Y.-S., Tsai; L.-C., Lee, S.-H., Yuan, H. S. and Shyur*, L.-F.

Structural and catalytic roles of residues located in beta13 strand and the following beta-turn loop in Fibrobacter succinogenes 1,3-1,4- beta -D-glucanase.

Biochim. Biophys. Acta, 2009, 1790, 231–239

Kuo, P,-S, Doudeva, L. G., Wang, Y.-T., Shen, C.-K. J. and Yuan*, H. S. 

Structural insights into TDP-43 in nucleic acid binding and domain interactions. 

Nucleic Acids Res. 2009, 37, 6, 1799-1808

2008

Shi, Z., Yang, W.-Z., Lin-Chao, S., Chak, K.-F. and Yuan*, H. S. 
Crystal structure of Escherichia coli PNPase: central channel residues are involved in processive RNA degradation.
RNA 2008, 14, 1-11

Li, C. -L.,Yang, W. -Z., Chen, Y. -P. and Yuan*, H. S.
Structural and functional insights into human Tudor-SN, a key component linking RNA interference and editing.
Nucleic Acid Res. 2008, 36, 11, 3579-3589
 
2007
 
Lei, G. -S., Chen, C. -J., Yuan, H. S., Wang., S. -H. and Hu*, S. -T.
Inhibition of IS2 transposition by factor for inversion stimulation. 
FEMS Microbiol Lett. 2007, 275, 98-105
 
Huang, H. and Yuan*, H. S.  
The conserved asparagine in the HNH motif plays an important structural role in metal finger endonucleases.  
J. Mol. Biol. 2007, 368, 3, 812-821
 
Wang, Y. -T., Yang, Y. -J., Li, C. -L., Doudeva, L. G., and Yuan*, H. S.
Structural basis for sequence-dependent DNA cleavage by nonspecific endonucleases.
Nucleic Acid Res. 2007, 35, 2, 584-594
 
2006
　
Pan, Y. -H., Liao, C. -C., Kuo, C. -C., Duan, K.-J., Liang, P.-H, Yuan, H. S., Hu, S.-T. and Chak*, K.-F. 
The critical roles of polyamines in regulating ColE7 production and restricting ColE7 uptake of the colicin-producing Escherichia coli.
J. Biol. Chem. 2006, 281, 13083
　
Doudeva, L. G., Huang, H., Hsia, K.-C., Shi, Z., Li, C. -L., Cheng, Y. -S. and Yuan*, H. S.
Crystal structural analysis and metal-dependent stability and activity studies of the ColE7 endonuclease domain in complex with DNA/Zn²⁺ or inhibitor/Ni²⁺.
Protein Sci. 2006, 15, 269-280
　
Cheng, Y.-S., Shi, Z., Doudeva, L. G., Yang, W. -Z., Chak, K. -F. and Yuan*, H. S.
High-resolution crystal structure of a truncated ColE7 translocation domain: Implications for colicin transport across membranes. 
J. Mol. Biol. 2006, 356, 22-31
　
2005
　
Hsia, K.-C., Li, C. -L. and Yuan*, H. S.
Structural and functional insight into the sugar-nonspecific nucleases in host defense.
Curr. Opin. Struct. Biol, 2005, 15, 126-134

Liu, H., Peng, H.-W., Cheng, Y.-S., Yuan, H. S. and Yang-Yen*, H.-F.
Stabilization and enhancement of the antiapoptotic activity of Mcl-1 by TCTP. 
Mol. Cell. Biol. 2005, 3117–3126
 
Shi, Z., Chak. K.-F. and Yuan*, H. S.
Identification of an essential cleavage site in ColE7 required for import and killing of cells. 
J. Biol. Chem. 2005, 280, 24663-24668
　 　
2004
 
Hsia, K.-C., Chak, K.-F., Liang, P. -H., Cheng, Y. -S., Ku, W. -Y. and Yuan*, H. S. 
DNA binding and degradation by the H-N-H protein ColE7
Structure 2004, 12, 205-214
 
Lin, Y.-H., Liao, C. -C., Liang, P. -H., Yuan*, H. S. and Chak*, K. -F.
Involvement of colicin in the limited protection of the colicin producing cells against bacteriophage
Biochem. Biophys. Res. Commun. 2004, 318, 81-87
 
2003
 
Tsai, L. -C., Shyur, L. -F., Lee, S. -H., Lin, S. -S. and Yuan*, H. S. 
Crystal structure of a natural circularly-permutated jellyroll protein: 1,3-1,4-beta-D-glucanase from Fibrobacter succinogenes.
J. Mol. Biol. 2003, 330, 607-620
 
Li, C. -L., Hor, L. -I., Chang, Z. -F., Tsai, L. -C., Yang, W. -Z. and Yuan*, H. S. 
DNA binding and cleavage by the periplasmic nuclease Vvn- A novel structure with a known active site.
EMBO J. 2003, 22, 4014-4025
 
2002
　
Chang, S. -J., Hsieh, S. -Y., Yuan, H. S. and Chak*, K.-F. 
Characterization of the specific cleavage of ceiE7-mRNA of the bactericidal ColE7 operon.

Biochem. Biophys. Res. Commun. 2002, 299, 613-620
Cheng, Y. -S., Hsia, K. -C., Doudeva, L. G., Kin-Fu Chak and Yuan*, H. S.
The crystal structure of the nuclease domain of colicin E7 suggests a mechanism for binding to double-stranded DNA by the H-N-H endonucleases.
J. Mol. Biol. 2002, 324, 227-236
　
Sui, M. -J., Tsai, L. -C., Hsia, K. -C., Doudeva, L. G., Ku, W.-Y., Han, G. W. and Yuan*, H. S.
Metal ions and phosphate binding in the H-N-H motif: Crystal structures of the nuclease domain of ColE7/Im7 in complex with a phosphate ion and different divalent metal ions. 
Protein Sci. 2002, 11, 2947-2957
　
Cheng, H. -L., Tsai, L. -C., Lin, S. -S., Yuan*, H. S., Yang, N. -S., Lee, S. -H. and Shyur*, L. -F.
Mutagenesis of Trp54 and Trp203 residues on Fibrobacter Succinogens 1,3-1,4-b-D-glucanase significantly affects catalytic activities of the enzyme. 
Biochemistry 2002, 41, 8759-8766
　
Ku, W. -Y., Liu, Y. -W., Hsu, Y. -C., Liao, C. -C., Liang, P. -H., Yuan, H. S. and Chak*, K. -F. 
The zinc ion in the HNH motif of the endonuclease domain of colicin E7 is not required for DNA binding but is essential for DNA hydrolysis.
Nucleic Acid Res. 2002, 30, 1670-1678
　
Yang Z., Zhang H., Hung, H. -C., Kuo, C. -C., Tsai, L. -C., Yuan, H. S., Chou, W. -Y., Chang, G. -G., Tong*, L. 
Structural studies of the pigeon cytosolic NADP(+)-dependent malic enzyme. 
Protein Sci. 2002, 11:332-41.

2001

Chen, J. L., Tsai, L. C., Wen, T. N., Tang, J. B., Yuan*, H. S. and Shyur*, L. F.
Directed mutagenesis of specific active site residues on Fibrobacter succinogenes 1,3-1,4-beta-D-glucanase significantly affects catalysis and enzyme structural stability.
J. Biol. Chem. 2001, 276, 17895-17901.

Tsai, L. C., Shyur, L. F., Lin, S. S., Yuan*, H. S.
Crystallization and preliminary X-ray diffraction analysis of the 1,3-1,4-beta-D-glucanase from Fibrobacter succinogenes.
Acta Cryst. D. 2001, 57, 1303-1306.
　
2000
　
Cheng, Y.-S., Yang, W.-Z., Johnson, R. C. and Yuan*, H. S.
Structure analysis of the transcriptional activation region on Fis: Crystal structures of Six Fis Mutants with Different activation properties.  
J. Mol. Biol. 2000, 302, 1139-1151.
 
1999

Ko, T.-P., Liao, C.-C., Ku, W.-Y., Chak, K.-F. and Yuan*, H. S.
The crystal structure of the DNase domain of colicin E7 in complex with its inhibitor Im7 protein.
Structure, 1999, 7, 91-102.
 
Tsai, L.-C, Kuo, C.-C., Chou, W.-Y., Chang, G.-G. and Yuan*, H. S.
Crystallization and preliminary x-ray diffraction analysis of malic enzyme from pigeon liver.
Acta Cryst. D. 1999, 55, 1930-1932.
 
Ko, T.-P., Yang, W.-Z, Wu, S.-P., Hsin, T., and Yuan*, H. S.
The preliminary crystallographic analysis of the open-form E. coli tyrosine aminotransfer ase bound with a cofactor pyridoxal 5'-phosphate.
Acta Cryst. D. 1999, 55, 1474-1477. 
 
Lu, F.-M., Yuan*, H. S., Hsu, Y.-C., Chang, S.-J., Chak*, K.-F. 
Hierarchical order of critical residues on the immunity-determining region of the Im7 protein which confer specific immunity to its cognate colicin.
Biochem. Biophys. Res. Commun. 1999, 264, 69-75.
　
Chang*, S.-L., Chao, C.-H., Huang, Y.-S., Jean, Y.-C., Sheu, H.-S., Liang, F.-J., Chen, C.-K., Yuan*, H. S.
Quantitative phase determination for macromolecular crystals using stereoscopic multibeam imaging
Acta. Cryst. A. 1999, 55, 933-938. 
 
Hsu, W.-H., Chien, F.-T., Hsu, C.-L., Wang, T.-C., Yuan*, H. S., and Wang*, W.-C.
Expression, crystallization and preliminary x-ray diffraction studies of N- carbamyl-D-amino-acid amidohydrolase from Agrobacterium radiobacter.
Acta. Cryst. D. 1999, 55, 694-695. 
 
1998
 
Yang, W.-Z, Ko, T. P., Corselli, L., Johnson, R. C. and Yuan*, H. S.
The conversion from a beta-strand to an alph-helix induced by a single-site mutation identified in the crystal structures of Fis mutant Pro26Ala.
Protein Sci. 1998, 7, 1875-1883.
 
1997
 
Safo, M. K., Yang, W.-Z., Corselli, L., Crampton, S., Yuan*, H. S, and Johnson*, R. C.
The transactivation region of the Fis protein that controls site-specific DNA inversion contains extended mobile beta-hairpin arms.
EMBO J. 1997, 16, 6860-6873.
 
Hsieh, S. -H., Ko, T. -P., Tseng, M. -Y., Ku, W. -Y., Chak*, K.-F, and Yuan*, H. S.
A novel role of ImmE7 in the autoregulatory expression of ColE7 operon and identification of possible ribonuclease active sites in the crystal structure of dimeric ImmE7.
EMBO J. 1997, 16, 1444-1454

1996
 
Chak, K.-F., Safo, M. K., Ku, W.-Y., Hsieh, S.-Y., and Yuan*, H. S.
The crystal structure of the ImmE7 protein suggests a possible colicin-interacting surface.
Proc. Natl. Acad. Sci. USA, 1996, 93, 6437-6442

1995
 
Ku, W. -Y., Wang, C. -S., Chen, J. -Y., Chak, K.-F., Safo, M. K. and Yuan*, H. S.
Crystallization and preliminary crystallographic analysis of ImmE7 protein of Colicin E7.
Proteins, Struc. Func. & Genet. 1995, 23, 588-590
 
1994
 
Yuan*, H. S., Yang, W.-Z., Wang, S. S., Finkel, S. E. and Johnson, R. C.
The structure of Fis mutant Pro61-Ala illustrates that the kink within the long a-helix is not due to the presence of the proline residue. 
J. Biol. Chem. 1994, 269, 46, 28947-28954
 
Yuan*, H. S., Stevens, R. C., Kotzle, T. F. and Bau*, R.
Determination of the absolute configuration of (S)-(+)-neopentyl-1-d alcohol by neutron diffraction study of strychnium neopentylphthalate.
Proc. Natl. Acad. Sci. USA 1994, 91, 12872-12876