Browse > Article

Backbone 1H, 15N, and 13C Resonance Assignments and Secondary-Structure of the Conserved Hypothetical Protein HP0892 of Helicobacter pylori  

Han, Kyung-Doo (Research Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University)
Park, Sung-Jean (Research Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University)
Jang, Sun-Bok (Research Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University)
Lee, Bong-Jin (Research Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University)
Publication Information
Molecules and Cells / v.25, no.1, 2008 , pp. 138-141 More about this Journal
Abstract
HP0892 (SwissProt/TrEMBL ID O25552) is a 90-residue conserved hypothetical protein from Helicobacter pylori strain 26695, with a calculated pI of 9.38 and a molecular mass of 10.41 kDa. It belongs to the Plasmid stabilization system protein family (PF05016) in the Pfam database. Proteins with sequence similarity to HP0892 exist in Vibrio choierae, Enterococcus faecalis, Campylobacter jejuni, Streptococcus pneumoniae, Haemophilus influenzae, Escherichia coli O157. Here we report the sequence-specific backbone resonance assignments of HP0892 using multidimentional heteronuclear NMR spectroscopy. About 97.0% (422/435) of the HN, N, CO, $C{\beta}$, $C{\alpha}$ resonances of 90 residues of HP0892 were assigned. On the basis of the resonance assignments, three helical regions and four strand regions were identified using the CSI program. This study is a prerequisite for calculating the solution structure of HP0892, and will be useful for studying its interaction with other molecules.
Keywords
Backbone Resonance Assignment; Helicobacter pylori; HP0892; Hypothetical Protein; NMR; Unknown Protein;
Citations & Related Records
Times Cited By KSCI : 1  (Citation Analysis)
Times Cited By Web Of Science : 2  (Related Records In Web of Science)
연도 인용수 순위
1 Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D.J. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402   DOI
2 Delaglio, F., Grzesiek, S., Vuister, G.W., Zhu, G., Pfeifer, J., and Bax, A. (1995). NMRPipe: a multidimensional spectral processing system based on UNIX pipes. J. Biomol. NMR 6, 277-293
3 Johnson, B.A. and Blevins, R.A. (1994). NMR View: A computer program for the visualization and analysis of NMR data. J. Biomol. NMR 4, 603-614   DOI   ScienceOn
4 Kay, R.E., Ikura, M., Tschudin, R., and Bax, A. (1990). Three-dimensional triple resonance NMR spectroscopy of isotopically enriched proteins. J. Magn. Reson. 89, 496-502
5 Peek, Jr. R.M. and Blaser, M.J. (2002). Helicobacter pylori and gastrointestinal tract adenocarcinomas. Nat. Rev. Cancer 2, 28-37   DOI
6 Sachs, G., Weeks, D.I., Melchers, K., and Scott, D.R. (2003). The gastric biology of Helicobacter pylori. Annu. Rev. Physiol. 65, 349-369   DOI   ScienceOn
7 Wishart, D.S. and Sykes, B.D. (1994). Chemical shifts as a tool for structure determination. Meth. Enzymol. 239, 363-392   DOI
8 Ikura, M., Bax, A., Clore, M., and Gronenborn, A.M. (1990). Detection of nuclear Overhauser effects between degenerate amide proton resonances by heteronuclear three-dimensional nuclear magnetic resonance spectroscopy. J. Am. Chem. Soc. 112, 9020-9021   DOI
9 Bateman, A., Birney, E., Cerruti, L., Durbin, R., Etwiller, L., Eddy S.R., Griffiths-Jones, S., Howe, K.L., Marshall, M., and Sonnhammer, E.L. (2002). The Pfam protein families data base. Nucleic Acids Res. 30, 276-280   DOI
10 Gronenborn, A.M., Bax, A., Wingfield, P.T., and Clore, M. (1989). A powerful method of sequential proton resonance assignment in proteins using relayed $^{15}N$-$^{1}H$ multiple quantum coherence spectroscopy. FEBS Lett. 243, 93-98   DOI   ScienceOn
11 Han, K.D., Park, S.J., Jang, S.B., Son, W.S., and Lee, B.J. (2005b). Solution structure of conserved hypothetical protein HP0894 from Helicobacter pylori. Proteins 61, 1114-1116   DOI   ScienceOn
12 Wotherspoon, A.C., Doglioni, C., Diss, T.C., Pan, L., Moschini, A., de Boni, M., and Isaacson, P.G. (1993). Regression of primary low-grade B-cell gastric lymphoma of mucosa-associated lymphoid tissue type after eradication of Helicobacter pylori. Lancet 342, 575-577   DOI   ScienceOn
13 Marchler-Bauer, A. and Bryant, S.H. (2004). CD-Search: protein domain annotations on the fly. Nucleic Acids Res. 32, W327-331   DOI   ScienceOn
14 Han, K.D., Park, S.J., and Lee, B.J. (2005a). Backbone $^{1}H$, $^{15}N$, and 13C resonance assignments and secondary-structure of conserved hypothetical protein HP0894 from Helicobacter pylori. Mol. Cells 20, 442-445
15 Marshall, B.J. and Warren, J.R. (1984). Unidentified curved bacilli in the stomach of patients with gastritis and peptic ulceration. Lancet 1, 1311-1315
16 Wittekind, M. and Mueller, L. (1993). HNCACB, A high sensitivity 3D NMR experiment to correlate amide proton and nitrogen resonances with the $\alpha$-carbon and $\beta$-carbon resonances in proteins. J. Magn. Reson. Ser. B 101, 214-217   DOI   ScienceOn
17 Terry, C.E., McGinnis, L.M., Madigan, K.C., Cao, P., Cover, T.L., Liechti, G.W., Peek, R.M. Jr, and Forsyth, M.H. (2005). Genomic comparison of cag pathogenicity island (PAI)-positive and -negative Helicobacter pylori strains: identification of novel markers for cag PAI-positive strains. Infect. Immun. 73, 3794-3798   DOI   ScienceOn
18 Grzesiek, S. and Bax, A. (1992). Correlating backbone amide and side chain resonances in larger proteins by multiple relayed triple resonance NMR. J. Am. Chem. Soc. 114, 6291-6293   DOI
19 Rothenbacher, D. and Brenner, H. (2003). Burden of Helicobacter pylori and H. pylori-related diseases in developed countries: recent developments and future implications. Microbes Infect. 5, 693-703   DOI   ScienceOn