Insights into Mycoplasma genitalium metabolism revealed by the structure of MG289, an extracytoplasmic thiamine binding lipoprotein

Proteins: Structure, Function and Bioinformatics

Volumn 79, Issue 2, 2011, Pages 528-536

  Sippel, Katherine H ^a   Venkatakrishnan, Balasubramanian ^a   Boehlein, Susan K ^b   Sankaran, Banumathi ^c   Quirit, Jeanne G ^a   Govindasamy, Lakshamanan ^a   Agbandje McKenna, Mavis ^a   Goodison, Steve ^d   Rosser, Charles J ^b   McKenna, Robert ^a  

^a Department of Clinical and Health Psychology   (United States)

^b UNIVERSITY OF FLORIDA   (United States)

^c LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

^d UNIVERSITY OF FLORIDA HEALTH SCIENCE CENTER   (United States)

Author keywords

Cypl; Extracytoplasmic lipoprotein; P37; Sexually transmitted infection; Small angle X ray scattering; Substrate binding protein; X ray crystallography

Indexed keywords

BINDING PROTEIN; CYTOPLASM PROTEIN; LIPOPROTEIN; PROTEIN MG289; PYROPHOSPHATE; THIAMINE; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL METABOLISM; BINDING SITE; CONCENTRATION RESPONSE; CRYSTAL STRUCTURE; DIMERIZATION; MYCOPLASMA GENITALIUM; PRIORITY JOURNAL; PROTEIN PHOSPHORYLATION; PROTEIN QUATERNARY STRUCTURE; PROTEIN SECONDARY STRUCTURE; SEQUENCE HOMOLOGY;

CRYSTALLOGRAPHY, X-RAY; LIPOPROTEINS; MODELS, MOLECULAR; MYCOPLASMA GENITALIUM; PERIPLASMIC BINDING PROTEINS; PROTEIN BINDING; PROTEIN MULTIMERIZATION; PROTEIN STRUCTURE, TERTIARY; RECOMBINANT PROTEINS; SCATTERING, SMALL ANGLE; THIAMINE; X-RAY DIFFRACTION;

MYCOPLASMA GENITALIUM;

EID: 78650780137     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.22900     Document Type: Article

References (46)

1. Fraser CM, Gocayne JD, White O, Adams MD, Clayton RA, Fleischmann RD, Bult CJ, Kerlavage AR, Sutton G, Kelley JM, Fritchman RD, Weidman JF, Small KV, Sandusky M, Fuhrmann J, Nguyen D, Utterback TR, Saudek DM, Phillips CA, Merrick JM, Tomb JF, Dougherty BA, Bott KF, Hu PC, Lucier TS, Peterson SN, Smith HO, Hutchison CA, III, Venter JC. The minimal gene complement of Mycoplasma genitalium. Science 1995; 270: 397-403.
2. Maniloff J. Phylogeny of Mycoplasmas. In: Mycoplasmas Molecular Biology and Pathogenesis, Maniloff J, McElheney R, Finch L, Baseman J, editors. Washington, DC, USA: American Society of Microbiology Press; 1992. pp 549-559.
3. Pollack JD, Myers MA, Dandekar T, Herrmann R. Suspected utility of enzymes with multiple activities in the small genome Mycoplasma species: the replacement of the missing "household" nucleoside diphosphate kinase gene and activity by glycolytic kinases. OMICS 2002; 6: 247-258.
4. Mushegian AR, Koonin EV. A minimal gene set for cellular life derived by comparison of complete bacterial genomes. Proc Natl Acad Sci USA 1996; 93: 10268-10273.
5. Gil R, Silva FJ, Pereto J, Moya A. Determination of the core of a minimal bacterial gene set. Microbiol Mol Biol Rev 2004; 68: 518-537.
6. Glass JI, Assad-Garcia N, Alperovich N, Yooseph S, Lewis MR, Maruf M, Hutchison CA, III, Smith HO, Venter JC. Essential genes of a minimal bacterium. Proc Natl Acad Sci USA 2006; 103: 425-430.
7. Hutchison CA, Peterson SN, Gill SR, Cline RT, White O, Fraser CM, Smith HO, Venter JC. Global transposon mutagenesis and a minimal Mycoplasma genome. Science 1999; 286: 2165-2169.
8. Baseman JB, Dallo SF, Tully JG, Rose DL. Isolation and characterization of Mycoplasma genitalium strains from the human respiratory tract. J Clin Microbiol 1988; 26: 2266-2269.
9. Tully JG, Taylor-Robinson D, Cole RM, Rose DL. A newly discovered mycoplasma in the human urogenital tract. Lancet 1981; 1: 1288-1291.
10. Tully JG, Taylorrobinson D, Rose DL, Cole RM, Bove JM. Mycoplasma genitalium, a new species from the human urogenital tract. Int J Syst Bacteriol 1983; 33: 387-396.
11. Ross JD, Jensen JS. Mycoplasma genitalium as a sexually transmitted infection: implications for screening, testing, and treatment. Sex Transm Infect 2006; 82: 269-271.
12. Manhart LE, Holmes KK, Hughes JP, Houston LS, Totten PA. Mycoplasma genitalium among young adults in the United States: an emerging sexually transmitted infection. Am J Public Health 2007; 97: 1118-1125.
13. Perez G, Skurnick JH, Denny TN, Stephens R, Kennedy CA, Regivick N, Nahmias A, Lee FK, Lo SC, Wang RY, Weiss SH, Louria DB. Herpes simplex type II and Mycoplasma genitalium as risk factors for heterosexual HIV transmission: report from the heterosexual HIV transmission study. Int J Infect Dis 1998; 3: 5-11.
14. Namiki K, Goodison S, Porvasnik S, Allan RW, Iczkowski KA, Urbanek C, Reyes L, Sakamoto N, Rosser CJ. Persistent exposure to Mycoplasma induces malignant transformation of human prostate cells. PLo S One 2009; 4: e6872.
15. Jensen JS. Single-dose azithromycin treatment for Mycoplasma genitalium-positive urethritis: best but not good enough. Clin Infect Dis 2009; 48: 1655-1656.
16. Gilson E, Alloing G, Schmidt T, Claverys JP, Dudler R, Hofnung M. Evidence for high affinity binding-protein dependent transport systems in gram-positive bacteria and in Mycoplasma. EMBO J 1988; 7: 3971-3974.
17. Dudler R, Schmidhauser C, Parish RW, Wettenhall RE, Schmidt T. A mycoplasma high-affinity transport system and the in vitro invasiveness of mouse sarcoma cells. Embo J 1988; 7: 3963-3970.
18. Sippel KH, Boehlein SK, Sakai Y, Quirit JG, Agbandje-McKenna M, Rosser CJ, McKenna R. Cloning, expression, purification, crystallization and preliminary X-ray analysis of Mycoplasma genitalium protein MG289. Acta Crystallogr Sect F Struct Biol Cryst Commun 2009; 65(Part 9): 910-912.
19. Sippel KH, Robbins AH, Reutzel R, Boehlein SK, Namiki K, Goodison S, Agbandje-McKenna M, Rosser CJ, McKenna R. Structural insights into the extracytoplasmic thiamine-binding lipoprotein p37 of Mycoplasma hyorhinis. J Bacteriol 2009; 191: 2585-2592.
20. Sippel KH, Robbins AH, Reutzel R, Domsic J, Boehlein SK, Govindasamy L, Agbandje-McKenna M, Rosser CJ, McKenna R. Structure determination of the cancer-associated Mycoplasma hyorhinis protein Mh-p37. Acta Crystallogr D Biol Crystallogr 2008; 64(Part 11): 1172-1178.
21. Quiocho FA, Ledvina PS. Atomic structure and specificity of bacterial periplasmic receptors for active transport and chemotaxis: variation of common themes. Mol Microbiol 1996; 20: 17-25.
22. Fukami-Kobayashi K, Tateno Y, Nishikawa K. Domain dislocation: a change of core structure in periplasmic binding proteins in their evolutionary history. J Mol Biol 1999; 286: 279-290.
23. McPherson A. Preparation and analysis of protein crystals. New York: Wiley; 1982.
24. Otwinowski Z, Minor W. Processing of X-ray diffraction data collected in oscillation mode. In: Methods in Enzymology, Carter C, Jr, Sweet R, editors. New Haven, CT, USA: Yale University; 1997. pp 307-326.
25. CCP4. The CCP4 suite: programs for protein crystallography. Acta Crystallogr D Biol Crystallogr 1994; 50(Part 5): 760-763.
26. Vagin A, Teplyakov A. Molecular replacement with MOLREP. Acta Crystallogr D Biol Crystallogr 2010; 66(Part 1): 22-25.
27. Emsley P, Cowtan K. Coot: model-building tools for molecular graphics. Acta Crystallogr D Biol Crystallogr 2004; 60(12, Part 1): 2126-2132.
28. Adams PD, Afonine PV, Bunkoczi G, Chen VB, Davis IW, Echols N, Headd JJ, Hung LW, Kapral GJ, Grosse-Kunstleve RW, McCoy AJ, Moriarty NW, Oeffner R, Read RJ, Richardson DC, Richardson JS, Terwilliger TC, Zwart PH. PHENIX: a comprehensive Python-based system for macromolecular structure solution. Acta Crystallogr D Biol Crystallogr 2010; 66(Part 2): 213-221.
29. Heiney PA. Datasqueeze. v. 2.1. Philadelphia, PA: University of Pennsylvania; 2002.
30. Wriggers W, Milligan RA, McCammon JA. Situs: a package for docking crystal structures into low-resolution maps from electron microscopy. J Struct Biol 1999; 125: 185-195.
31. Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC, Ferrin TE. UCSF Chimera-a visualization system for exploratory research and analysis. J Comput Chem 2004; 25: 1605-1612.
32. Petoukhov MV, Konarev PV, Kikhney AG, Svergun DI. ATSAS 2.1-towards automated and web-supported small-angle scattering data analysis. J Appl Crystallogr 2007; 40: S223-S228.
33. Bond CS. TopDraw: a sketchpad for protein structure topology cartoons. Bioinformatics 2003; 19: 311-312.
34. Praaenikar J, Afonine PV, Guncar G, Adams PD, Turk D. Averaged kick maps: less noise, more signal and probably less bias. Acta Crystallogr D Biol Crystallogr 2009; 65(Part 9): 921-931.
35. DeLano WL. The Pymol molecular graphics system. Palo Alto, CA: Delano Scientific; 2002.
36. Finzel BC, Salemme FR. Anomalous temperature factor behavior and crystal lattice mobility in cytochrome C'. Biophys J 1986; 49: 73-76.
37. Krissinel E, Henrick K. Inference of macromolecular assemblies from crystalline state. J Mol Biol 2007; 372: 774-797.
38. Berntsson RP, Smits SH, Schmitt L, Slotboom DJ, Poolman B. A structural classification of substrate-binding proteins. FEBS Lett 2010; 584: 2606-2617.
39. Holm L, Kaariainen S, Rosenstrom P, Schenkel A. Searching protein structure databases with DaliLite v. 3. Bioinformatics 2008; 24: 2780-2781.
40. Janin J, Bahadur RP, Chakrabarti P. Protein-protein interaction and quaternary structure. Q Rev Biophys 2008; 41: 133-180.
41. Richarme G. Associative properties of the Escherichia coli galactose binding protein and maltose binding protein. Biochem Biophys Res Commun 1982; 105: 476-481.
42. Richarme G. Associative properties of the Escherichia coli galactose-binding protein and maltose-binding protein. Biochim Biophys Acta 1983; 748: 99-108.
43. Pollack JD, Jones MA, Williams MV. The metabolism of AIDS-associated mycoplasmas. Clin Infect Dis 1993; 17( Suppl 1): S267-S271.
44. Smith SL, Vandemark PJ, Fabricant J. Respiratory pathways in the Mycoplasma. I. Lactate oxidation by Mycoplasma gallisepticum. J Bacteriol 1963; 86: 893-897.
45. Suthers PF, Dasika MS, Kumar VS, Denisov G, Glass JI, Maranas CD. A genome-scale metabolic reconstruction of Mycoplasma genitalium, iPS189. PLoS Comput Biol 2009; 5: e1000285.
46. Davidson AL, Dassa E, Orelle C, Chen J. Structure, function, and evolution of bacterial ATP-binding cassette systems. Microbiol Mol Biol Rev 2008; 72: 317-364.