Acknowledgement
Supported by : Pohang University of Science and Technology, Korea Health Industry Development Institute, Korea Health Industry Development Institute, Korea Research Foundation
References
- Adams, P.D., Grosse-Kunstleve, R.W., Hung, L.W., Ioerger, T.R., McCoy, A.J., Moriarty, N.W., Read, R.J., Sacchettini, J.C., Sauter, N.K., and Terwilliger, T.C. (2002). PHENIX: building new software for automated crystallographic structure determination. Acta Crystallogr. D58, 1948-1954
- Brunger, A.T., Adams, P.D., Clore, G.M., Delano, W.L., Gros, P., Grosse-Kunsteve, R.W., Jiang, J.S., Kuszwewski, J., Nilges, M., and Pannu, N.S. (1998). Crystallography & NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr. D54, 905-921
- Choquet, C.G., Richards, J.C., Patel, G.B., and Sprott, G.D. (1994). Ribose biosynthesis in methanogenic bacteria. Arch. Microbiol. 161, 481-488 https://doi.org/10.1007/BF00307768
- Dandekar, T., Schuster, S., Snel, B., Huyen, M., and Bork, P. (1999). Pathway alignment: application to the comparative analysis of glycolytic enzymes. Biochem. J. 343, 115-124 https://doi.org/10.1042/0264-6021:3430115
- Decker, P., Schweer, H., and Pohlmann, R. (1982). Identification of formose sugars, presumable prebiotic metabolites, using capillary gas chromatography/gas chromatography-mass spectrometry of n-butoximine trifluoroactatcs on OV-225. J. Chromatogr. 244, 281-291 https://doi.org/10.1016/S0021-9673(00)85692-7
- DeLano, W.L. (2002). The PyMOL Molecular Graphics System, DeLano Scientific, San Carlos, CA
- Eisenreich, W., and Bacher, A. (1991). Biosynthesis of 5 hydroxybenzimidazolycobamid (factor III) in Methanobacterium thermoautotrophicum. J. Biol. Chem. 266, 23840-23849
- Essenbeg, M.K., and Cooper, R.A. (1975). Two ribose-5-phosphate isomerases from Escherichia coli K-12: partial characterization of the enzymes and consideration of their possible physiological roles. Eur. J. Biochem. 55, 323-332 https://doi.org/10.1111/j.1432-1033.1975.tb02166.x
- Gouet, P., Robert, X., and Courcelle, E. (2003). ESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of proteins. Nucleic Acids Res. 31, 3320-3323 https://doi.org/10.1093/nar/gkg556
- Graile, M., Meyer, P., Leulloit, N., Sorel, I., Janin, J., Van Tilbeurgh, H., and Quevillon-Cheruel, S. (2005). Crystal structure of the S. cerevisiae D-ribose-5-phosphate isomerase: comparison with the archaeal and bacterial enzymes. Biochimie 87, 763-769 https://doi.org/10.1016/j.biochi.2005.03.001
- Grochowski, L.L., Xu, H., and White, R.H. (2005). Ribose-5- phosphate biosynthesis in Methanocaldococcus jannaschii Occurs in the absence of pentose-phosphate pathway. J. Bacteriol. 187, 7382-7389 https://doi.org/10.1128/JB.187.21.7382-7389.2005
- Heo, S.D., Cho, M., Ku, J.K., and Ban, C. (2007). Steady-state ATPase activity of E. coli MutS modulated by its dissociation from heteroduplex DNA. Biochem. Biophys. Res. Commun. 364, 264-269 https://doi.org/10.1016/j.bbrc.2007.09.130
- Holmes, M.A., Buckner, F.S., Van Voorhis, W.C., Verlinde, C.L.M.J., Mehlin, C., Boni, E., DeTitta, G., Luft, J., Lauricella, A., Anderson, L., et al. (2006). Structure of ribose 5-phosphate isomerase from Plasmodium falciparum. Acta Crystallogr. F62, 427-431
- Hove-Jensen, B., and Maigaard, M. (1993). Escherichia coli rpiA gene encoding ribose phosphate isomerase A. J. Bacteriol. 175, 5628-5635 https://doi.org/10.1128/jb.175.17.5628-5635.1993
- Huck, J.H., Verhoeven, N.M., Struys, E.A., Salomons, G.S., Jakobs, C., and van der Knaap, M.S. (2004). Ribose-5-phosphate isomerase deficiency: new inborn error in the pentose phosphate pathway associated with a slowly progrssive leukoencephalopathy. Am. J. Hum. Genet. 74, 745-751 https://doi.org/10.1086/383204
- Ishikawa, K., Matsui, I., Payan, F., Cambillau, C., Ishida, H., Kawarabayasi, Y., Kikuchi, H., and Roussel, A. (2002). A hyperthermostable D-ribose-5-phosphate isomerase from Pyrococcus horikoshii characterization and three-dimensional structure. Structure 10, 877-886 https://doi.org/10.1016/S0969-2126(02)00779-7
- Kleywegt, G.J., and Jones, T.A. (1996). Phi/psi-chology: Ramachandran revisited. Structure 4, 1395-1400 https://doi.org/10.1016/S0969-2126(96)00147-5
- Laskowski, R.A., Macarthur, M.W., Moss, D.S., and Thornton, J.M. (1993). PROCHECK: a program to check the stereochemical quality of the protein structure. J. Appl. Crystallogr. 26, 283-291 https://doi.org/10.1107/S0021889892009944
- Lee, J.H., Kim, S.Y., Rho, S.-H., Im, Y.J., Kim, Y.R., Kim, M.-K., Kang, G.B., Rhee, J.H., and Eom, S.H. (2005). Crystallization and preliminary X-ray crystallographic analysis of PAS factor from Vibrio vulnificus. Mol. Cells 20, 361-363
- Leslie, A.G. (1999). Integration of macromolecular diffraction data. Acta Crystallogr. D. Biol. Crystallogr. 55, 1696-1702 https://doi.org/10.1107/S090744499900846X
- Lim, H., Kim, K., Han, D., Oh, J., and Kim, Y. (2008). Crystal Structure of TTC0263, a Thermophilic TPR Protein from Thermus thermophilus HB27. Mol. Cells 24, 27-36
- Melendez-Hevia, E., Waddell, T.G., Heinrich, R., and Montero, F. (1997). Theoretical approaches to the evolutionary optimization of glycolysis-chemical analysis. Eur. J. Biochem. 244, 527-543 https://doi.org/10.1111/j.1432-1033.1997.t01-1-00527.x
- Otwinowski, Z. and Minor, W. (1997). Processing of x-ray diffraction data collected in oscillation mode. Methods Enzymol. 276, 307-326 https://doi.org/10.1016/S0076-6879(97)76066-X
- Park, S.-Y., Heo, Y.-J., Kim, K.-S., and Cho, Y.-H. (2005). Drosophila melanogaster Is Susceptible to Vibrio cholerae Infection. Mol. Cells 20, 409-415
- Rangarajan, E.S., Sivaraman, J., Matte, A., and Cygler, M. (2002). Crystal structure of D-ribose-5-phosphate isomerase (RpiA) from Escherichia coli. PROTEINS: Structure, Functions, and Genetics 48, 737-740 https://doi.org/10.1002/prot.10203
- Rault, M., Giudici-Orticoni, M.T., Gontero, B., and Ricard, J. (1993). Structural and functional properties of a multi-enzyme complexfrom spinach chloroplast. 1. Stoichiometry of the polypeptide chains. Eur. J. Biochem. 217, 1065-1073 https://doi.org/10.1111/j.1432-1033.1993.tb18338.x
- Roos, A.K. (2007). Structural and Functional Studies of Ribose-5- phosphate isomerase B. Digital Comprehensive Summaries of Uppsala Dissertations from the Faculty of Science and Technology 332, 1-5
-
Ryu, E.K., Kim, T.G., Kwon, T.H., Jung, I.D., Ryu, D., Park, Y.M., Kim, J., Ahn, K.H., and Ban, C. (2007). Crystal structure of recombinant human stromal cell-derived factor-1
$\alpha$ . PROTEINS: Structure, Function, and Bioinformatics 67, 1193-1197 https://doi.org/10.1002/prot.21350 - Shin, D.H., Roberts, A., Jancarik, J., Yokota, H., Kim, R., Wemmer, D.E., and Kim, S.H. (2003). Crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritime. Protein Sci. 12, 1464-1472 https://doi.org/10.1110/ps.0302703
- Thompson, J.D., Higgins, D.G., and Gibson, T.J. (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22, 4673-4680 https://doi.org/10.1093/nar/22.22.4673
- Zhang, R., Andersson, C.E., Savchenko, A., Skarina, T., Evdokimova, E., Beasley, S., Arrowsmith, C.H., Edwards, A.M., Joachimiak, A., and Mowbray, S.L. (2003). Structure of Escherichia coli ribose-5-phosphate isomerase: a ubiquitous enzyme of the pentose phosphate pathway and the Calvin cycle. Structure 11, 31-42 https://doi.org/10.1016/S0969-2126(02)00933-4
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