Isolation, characterization and molecular 3D model of human GDE4, a novel membrane protein containing glycerophosphodiester phosphodiesterase domain

References

• Patton-Vogt J. Transport and metabolism of glycerophosphodiesters produced through phospholipid deacylation. Biochim Biophys Acta 2007; 1771: 337–342
   Google Scholar
• Kasahara M, Makino K, Amemura M, Nakata A. Nucleotide sequence of the ugpQ gene encoding glycerophosphoryl diester phosphodiesterase of Escherichia coli K-12. Nucleic Acids Res 1989; 17: 2854–2866
   Google Scholar
• Tommassen J, Eiglmeier K, Cole ST, Overduin P, Larson TJ, Boos W. Characterization of two genes, glpQ and ugpQ, encoding glycerophosphoryl diester phosphodiesterases of Escherichia coli. Mol Gen Genet 1991; 226: 321–327
   Google Scholar
• Larson TJ, Ehrmann M, Boos W. Periplasmic glycerophosphodiester phosphodiesterase of Escherichia coli, a new enzyme of the glp regulon. J Biol Chem 1983; 258: 5428–5432
   Google Scholar
• Nilsson RP, Beijer L, Rutberg B. 1994. The glpT and glpQ genes of the glycerol regulon in Bacillus subtilis. Microbiology, 140:723–730.
   Google Scholar
• Shevchenko DV, Akins DR, Robinson EJ, Li M, Shevchenko OV, Radolf JD. Identification of homologs for thioredoxin, peptidyl prolyl cis-trans isomerase, and glycerophosphodiester phosphodiesterase in outer membrane fractions from Treponema pallidum, the syphilis spirochete. Infect Immun 1997; 65: 4179–4189
   PubMed Web of Science ®Google Scholar
• Stebeck CE, Shaffer JM, Arroll TW, Lukehart SA, Van Voorhis WC. Identification of the Treponema pallidum subsp. glycerophosphodiester phosphodiesterase homologue. FEMS Microbiol Lett 1997; 154: 303–310
   Google Scholar
• Fernandez-Murray JP, McMaster CR. Glycerophosphocholine catabolism as a new route for choline formation for phosphatidylcholine synthesis by the kennedy pathway. J Biol Chem 2005; 280: 38290–38296
   Google Scholar
• Fisher E, Almaguer C, Holic R, Griac P, Patton-Vogt J. Glycerophosphocholine-dependent growth requires gde1p (ypl110c) and git1p in Saccharomyces cerevisiae. J Biol Chem 2005; 280: 36110–36117
   Google Scholar
• Simocková M, Holic R, Tahotná D, Patton-Vogt J, Griac P. Yeast Pgc1p (YPL206c) controls the amount of phosphatidylglycerol via a phospholipase C-type degradation mechanism. J Biol Chem 2008; 283: 17107–17115
   Google Scholar
• Zheng B, Chen D, Farquhar MG. MIR16, a putative membrane glycerophosphodiester phosphodiesterase, interacts with RGS16. Proc Natl Acad Sci USA 2000; 97: 3999–4004
   Google Scholar
• Zheng B, Berrie CP, Corda D, Farquhar MG. GDE1/MIR16 is a glycerophosphoinositol phosphodiesterase regulated by stimulation of G protein-coupled receptors. Proc Natl Acad Sci USA 2003; 100: 1745–1750
   PubMedGoogle Scholar
• Simon GM, Cravatt BF. Anandamide biosynthesis catalyzed by the phosphodiesterase GDE1 and detection of glycerophospho-N-acyl ethanolamine precursors in mouse brain. J Biol Chem 2008; 283: 9341–9349
   PubMed Web of Science ®Google Scholar
• Yanaka N, Imai Y, Kawai E, Akatsuka H, Wakimoto K, Nogusa Y, Kato N, Chiba H, Kotani E, Omori K, Sakurai N. Novel membrane protein containing glycerophosphodiester phosphodiesterase motif is transiently expressed during osteoblast differentiation. J Biol Chem 2003; 278: 43595–43602
   Google Scholar
• Nogusa Y, Fujioka Y, Komatsu R, Kato N, Yanaka N. Isolation and characterization of two serpentine membrane proteins containing glycerophosphodiester phosphodiesterase, GDE2 and GDE6. Gene 2004; 337: 173–179
   Google Scholar
• Yanaka N, Nogusa Y, Fujioka Y, Yamashita Y, Kato N. Involvement of membrane protein GDE2 in retinoic acid-induced neurite formation in Neuro2A cells. FEBS Lett 2007; 581: 712–718
   Google Scholar
• Gallazzini M, Ferraris JD, Burg MB. GDPD5 is a glycerophosphocholine phosphodiesterase that osmotically regulates the osmoprotective organic osmolyte GPC. Proc Natl Acad Sci USA 2008; 105: 11026–1031
   PubMedGoogle Scholar
• Yanaka N. Mammalian glycerophosphodiester phosphodiesterases. Biosci Biotechnol Biochem 2007; 71: 1811–1818
   PubMed Web of Science ®Google Scholar
• Kanes SJ, Tokarczyk J, Siegel SJ, Bilker W, Abel T, Kelly MP. Rolipram: a specific phosphodiesterase 4 inhibitor with potential antipsychotic activity. Neuroscience 2007; 144: 239–246
   PubMed Web of Science ®Google Scholar
• Bateman A, Coin L, Durbin R, Finn RD, Hollich V, Griffiths-Jones S, Khanna A, Marshall M, Moxon S, Sonnhammer EL, Studholme DJ, Yeats C, Eddy SR. The PFAM protein families database. Nucleic Acids Res 2004; 32: D138–141
   PubMed Web of Science ®Google Scholar
• Bendtsen JD, Nielsen H, von Heijne G, Brunak S. Improved prediction of signal peptides: SignalP 3.0. J Mol Biol 2004; 340: 783–795
   PubMed Web of Science ®Google Scholar
• Kumar S, Tamura K, Nei M. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 2004; 5: 150–163
   PubMed Web of Science ®Google Scholar
• Arnold K, Bordoli L, Kopp J, Schwede T. The SWISS-MODEL Workspace: a web-based environment for protein structure homology modelling. Bioinformatics 2006; 22: 195–201
   PubMed Web of Science ®Google Scholar
• Lambert C, Leonard N, De Bolle X, Depiereux E. ESyPred3D: Prediction of proteins 3D structures. Bioinformatics 2002; 18: 1250–1256
   PubMed Web of Science ®Google Scholar
• Shi L, Liu JF, An XM, Liang DC. Crystal structure of glycerophosphodiester phosphodiesterase (GDPD) from Thermoanaerobacter tengcongensis, a metal ion-dependent enzyme: insight into the catalytic mechanism. Proteins 2008; 72: 280–288
   Google Scholar
• Lowry OH, Rosebrough NJ, Farr AL, Randall RJ. 1951. Protein measurement with the Folin phenol reagent. J Biol Chem:265–275.
   PubMed Web of Science ®Google Scholar
• Shapiro MB, Senapathy P. RNA splice junctions of different classes of eukaryotes: sequence statistics and functional implications in gene expression. Nucleic Acids Res 1987; 15: 7155–7174
   PubMed Web of Science ®Google Scholar
• Bachmann AS, Duennebier FF, Mocz G. Genomic organization, characterization, and molecular 3D model of GDE1, a novel mammalian glycerophosphoinositol phosphodiesterase. Gene 2006; 371: 144–153
   Google Scholar
• Lang Q, Zhang H, Li J, Yin H, Zhang Y, Tang W, Wan B, Yu L. Cloning and characterization of a human GDPD domain-containing protein GDPD5. Mol Biol Rep 2008; 35: 351–359
   Google Scholar
• Rao M, Sockanathan S. Transmembrane protein GDE2 induces motor neuron differentiation in vivo. Science 2005; 309: 2212–2215
   PubMedGoogle Scholar
• Granseth E, Seppälä S, Rapp M, Daley DO, Von Heijne G. Membrane protein structural biology – how far can the bugs take us?. Mol Membr Biol 2007; 24: 329–332
   PubMed Web of Science ®Google Scholar
• Liu S, Mansour MN, Dillman KS, Perez JR, Danley DE, Aeed PA, Simons SP, Lemotte PK, Menniti FS. Structural basis for the catalytic mechanism of human phosphodiesterase 9. Proc Natl Acad Sci USA 2008; 105: 13309–13314
   Google Scholar
• Shao HB, Chu LY, Lu ZH, Kang CM. Primary antioxidant free radical scavenging and redox signaling pathways in higher plant cells. Int J Biol Sci 2008; 4: 8–14
   Web of Science ®Google Scholar