Putative copper- and zinc-binding motifs in Streptococcus pneumoniae identified by immobilized metal affinity chromatography and mass spectrometry

Proteomics

Volumn 11, Issue 16, 2011, Pages 3288-3298

  Sun, Xuesong ^a   Xiao, Chuan le ^a   Ge, Ruiguang ^b   Yin, Xingfeng ^a   Li, Hui ^a   Li, Nan ^a   Yang, Xiaoyan ^a   Zhu, Ying ^a   He, Xiang ^a   He, Qing Yu ^a  

^a JINAN UNIVERSITY   (China)

^b SUN YAT SEN UNIVERSITY   (China)

Author keywords

Metal binding motif; Metalloproteome; Microbiology; Streptococcus pneumoniae

Indexed keywords

BINDING PROTEIN; COPPER BINDING PROTEIN; METALLOPROTEIN; UNCLASSIFIED DRUG; ZINC BINDING PROTEIN;

ACCURACY; ARTICLE; BIOINFORMATICS; CARBON METABOLISM; CATION EXCHANGE; CELL CYCLE REGULATION; CONTROLLED STUDY; EQUILIBRIUM DIALYSIS; IMMOBILIZED METAL AFFINITY CHROMATOGRAPHY; ION TRAP MASS SPECTROMETRY; MASS SPECTROMETRY; METALLOPROTEOMICS; NONHUMAN; NUCLEOTIDE METABOLISM; OXIDATION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN METABOLISM; PROTEIN MOTIF; PROTEIN SYNTHESIS; PROTEOMICS; REVERSED PHASE LIQUID CHROMATOGRAPHY; STREPTOCOCCUS PNEUMONIAE; TANDEM MASS SPECTROMETRY;

AMINO ACID MOTIFS; AMINO ACID SEQUENCE; BACTERIAL PROTEINS; CARRIER PROTEINS; CHROMATOGRAPHY, AFFINITY; COPPER; ELECTROPHORESIS, POLYACRYLAMIDE GEL; INTRACELLULAR SPACE; MASS SPECTROMETRY; METALLOPROTEINS; MOLECULAR SEQUENCE DATA; PEPTIDE FRAGMENTS; PROTEOME; PROTEOMICS; STREPTOCOCCUS PNEUMONIAE; ZINC;

BACTERIA (MICROORGANISMS); STREPTOCOCCUS PNEUMONIAE;

EID: 79960788253     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.201000396     Document Type: Article

References (39)

1. Tainer, J. A., Roberts, V. A., Getzoff, E. D., Metal-binding sites in proteins. Curr. Opin. Biotechnol. 1991, 2, 582-591.
2. Ge, R., Sun, H., Bioinorganic chemistry of bismuth and antimony: target sites of metallodrugs. Acc. Chem. Res. 2007, 40, 267-274.
3. Vašák, M., Hasler, D. W., Metallothioneins: new functional and structural insights. Curr. Opin. Chem. Biol. 2000, 4, 177-183.
4. Chasteen, N. D., Ferritin. Uptake, storage, and release of iron. Met. Ions Biol. Syst. 1998, 35, 479-514.
5. Andrews, S. C., Robinson, A. K., Rodriguez-Quinones, F., Bacterial iron homeostasis. FEMS Microbiol. Rev. 2003, 27, 215-237.
6. Dosanjh, N. S., Michel, S. L., Microbial nickel metalloregulation: NikRs for nickel ions. Curr. Opin. Chem. Biol. 2006, 10, 123-130.
7. Gao, Y., Chen, C., Chai, Z., Advanced nuclear analytical techniques for metalloproteomics. J. Anal. At. Spectrom. 2007, 22, 856-866.
8. Solomon, E. I., Spectroscopic methods in bioinorganic chemistry: blue to green to red copper sites. Inorg. Chem. 2006, 45, 8012-8025.
9. She, Y. M., Narindrasorasak, S., Yang, S., Spitale, N. et al., Identification of metal-binding proteins in human hepatoma lines by immobilized metal affinity chromatography and mass spectrometry. Mol. Cell. Proteomics 2003, 2, 1306-1318.
10. Porath, J., Carlsson, J., Olsson, I., Belfrage, G., Metal chelate affinity chromatography, a new approach to protein fractionation. Nature 1975, 258, 598-599.
11. Shi, W., Chance, M. R., Metallomics and metalloproteomics. Cell. Mol. Life Sci. 2008, 65, 3040-3048.
12. Sun, X., Chiu, J. F., He, Q. Y., Application of immobilized metal affinity chromatography in proteomics. Exp. Rev. Proteomics 2005, 2, 649-657.
13. Sun, X., Chiu, J. F., He, Q. Y., Fractionation of proteins by immobilized metal affinity chromatography. Methods Mol. Biol. 2008, 424, 205-212.
14. Makarov, A., Denisov, E., Lange, O., Horning, S., Dynamic range of mass accuracy in LTQ Orbitrap hybrid mass spectrometer. J. Am. Soc. Mass Spectrom. 2006, 17, 977-982.
15. Makarov, A., Denisov, E., Kholomeev, A., Balschun, W. et al., Performance evaluation of a hybrid linear ion trap/orbitrap mass spectrometer. Anal. Chem. 2006, 78, 2113-2120.
16. Perry, R. H., Cooks, R. G., Noll, R. J., Orbitrap mass spectrometry: instrumentation, ion motion and applications. Mass Spectrom. Rev. 2008, 27, 661-699.
17. Sun, X., Ge, F., Xiao, C. L., Yin, X. F. et al., Phosphoproteomic analysis reveals the multiple roles of phosphorylation in pathogenic bacterium Streptococcus pneumoniae. J. Proteome Res. 2010, 9, 275-282.
18. Sun, X., Ge, R., Chiu, J. F., Sun, H. et al., Identification of proteins related to nickel homeostasis in Helicobater pylori by immobilized metal affinity chromatography and two-dimensional gel electrophoresis. Metal Based Drugs 2008, 2008, 289490.
19. Ge, R., Sun, X., Gu, Q., Watt, R. M. et al., A proteomic approach for the identification of bismuth-binding proteins in Helicobacter pylori. J. Biol. Inorg. Chem. 2007, 12, 831-842.
20. Shi, W., Zhan, C., Ignatov, A., Manjasetty, B. A. et al., Metalloproteomics: high-throughput structural and functional annotation of proteins in structural genomics. Structure 2005, 13, 1473-1486.
21. Smith, S. D., She, Y. M., Roberts, E. A., Sarkar, B., Using immobilized metal affinity chromatography, two-dimensional electrophoresis and mass spectrometry to identify hepatocellular proteins with copper-binding ability. J. Proteome Res. 2004, 3, 834-840.
22. Sevcenco, A. M., Krijger, G. C., Pinkse, M. W., Verhaert, P. D. et al., Development of a generic approach to native metalloproteomics: application to the quantitative identification of soluble copper proteins in Escherichia coli. J. Biol. Inorg. Chem. 2009, 14, 631-640.
23. Lim, W. S., Macfarlane, J. T., Boswell, T. C., Harrison, T. G. et al., Study of community acquired pneumonia aetiology (SCAPA) in adults admitted to hospital: implications for management guidelines. Thorax 2001, 56, 296-301.
24. Cash, P., Argo, E., Ford, L., Lawrie, L. et al., A proteomic analysis of erythromycin resistance in Streptococcus pneumoniae. Electrophoresis 1999, 20, 2259-2268.
25. Lee, M. R., Bae, S. M., Kim, T. S., Lee, K. J., Proteomic analysis of protein expression in Streptococcus pneumoniae in response to temperature shift. J. Microbiol. 2006, 44, 375-382.
26. Soualhine, H., Brochu, V., Menard, F., Papadopoulou, B. et al., A proteomic analysis of penicillin resistance in Streptococcus pneumoniae reveals a novel role for PstS, a subunit of the phosphate ABC transporter. Mol. Microbiol. 2005, 58, 1430-1440.
27. Lee, K. J., Bae, S. M., Lee, M. R., Yeon, S. M. et al., Proteomic analysis of growth phase-dependent proteins of Streptococcus pneumoniae. Proteomics 2006, 6, 1274-1282.
28. Nanduri, B., Shah, P., Ramkumar, M., Allen, E. B. et al., Quantitative analysis of Streptococcus pneumoniae TIGR4 response to in vitro iron restriction by 2-D LC ESI MS/MS. Proteomics 2008, 8, 2104-2114.
29. Karlin, S., Zhu, Z. Y., Karlin, K. D., The extended environment of mononuclear metal centers in protein structures. Proc. Natl. Acad. Sci. USA 1997, 94, 14225-14230.
30. Pearson, R. G., Hard and soft acids and bases. J. Am. Chem. Soc. 1963, 85, 3533-3539.
31. Schroeder, M. J., Shabanowitz, J., Schwartz, J. C., Hunt, D. F. et al., A neutral loss activation method for improved phosphopeptide sequence analysis by quadrupole ion trap mass spectrometry. Anal. Chem. 2004, 76, 3590-3598.
32. Drabkin, H. J., Hollenbeck, C., Hill, D. P., Blake, J. A., Ontological visualization of protein-protein interactions. BMC Bioinformatics 2005, 6, 29.
33. Sun, X., Ge, R., Chiu, J. F., Sun, H. et al., Lipoprotein MtsA of MtsABC in Streptococcus pyogenes primarily binds ferrous ion with bicarbonate as a synergistic anion. FEBS Lett. 2008, 582, 1351-1354.
34. Kou, W., Kolla, H. S., Ortiz-Acevedo, A., Haines, D. C. et al., Modulation of zinc- and cobalt-binding affinities through changes in the stability of the zinc ribbon protein L36. J. Biol. Inorg. Chem. 2005, 10, 167-180.
35. Kaczanowska, M., Ryden-Aulin, M., Ribosome biogenesis and the translation process in Escherichia coli. Microbiol. Mol. Biol. Rev. 2007, 71, 477-494.
36. Heiss, K., Junkes, C., Guerreiro, N., Swamy, M. et al., Subproteomic analysis of metal-interacting proteins in human B cells. Proteomics 2005, 5, 3614-3622.
37. Andreini, C., Banci, L., Bertini, I., Rosato, A., Zinc through the three domains of life. J. Proteome Res. 2006, 5, 3173-3178.
38. Maret, W., Exploring the zinc proteome. J. Anal. Atom. Spectrom. 2004, 19, 15-19.
39. Holm, R. H., Kennepohl, P., Solomon, E. I., Structural and functional aspects of metal sites in biology. Chem. Rev. 1996, 96, 2239-2314.