Identification of novel phospholipase A2 group IX members in metazoans

Biochimie

Volumn 95, Issue 8, 2013, Pages 1534-1543

  Nevalainen, Timo J ^a   Morgado, Isabel ^b   Cardoso, João C R ^b  

^a UNIVERSITY OF TURKU   (Finland)

^b UNIVERSITY OF ALGARVE   (Portugal)

Author keywords

Conserved domain; GIX phospholipase A2; GXIV phospholipase A2; Pfam09056

Indexed keywords

CYSTEINE; PHOSPHOLIPASE A2; SECRETORY PHOSPHOLIPASE A2;

AMINO ACID SEQUENCE; ANIMAL; ARTICLE; CONSENSUS SEQUENCE; CRASSOSTREA GIGAS; DISULFIDE BOND; DUPLICATE GENE; MOLECULAR WEIGHT; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLANCTOMYCETES; PROTEIN ANALYSIS; PROTEIN FUNCTION; PROTEIN STRUCTURE; SEA ANEMONE; SEQUENCE ALIGNMENT; BACTERIA; CHEMISTRY; CLASSIFICATION; ENZYMOLOGY; FUNGUS; GENETICS; INVERTEBRATE; MOLECULAR EVOLUTION;

ACTINIARIA; BACTERIA (MICROORGANISMS); CNIDARIA; CONUS MAGUS; CRASSOSTREA GIGAS; EUKARYOTA; FUNGI; GASTROPODA; METAZOA; MOLLUSCA; NEMATOSTELLA VECTENSIS; OSTREIDAE; PROKARYOTA; STREPTOMYCES VIOLACEORUBER;

ANIMALS; BACTERIA; CONSERVED SEQUENCE; EVOLUTION, MOLECULAR; FUNGI; INVERTEBRATES; PHOSPHOLIPASES A2, SECRETORY; PHYLOGENY; SEQUENCE ALIGNMENT;

EID: 84879685705     PISSN: 03009084     EISSN: 61831638     Source Type: Journal    
DOI: 10.1016/j.biochi.2013.04.003     Document Type: Article

References (49)

1. 2 enzymes: classification and characterization Biochim. Biophys. Acta 1488 2000 1 19
2. 2 in inflammatory diseases and trauma Biochim. Biophys. Acta 1488 2000 83 90
3. 2 and their receptors and binding proteins Biochim. Biophys. Acta 1488 2000 59 70
4. 2 enzymes Prostaglandins Other Lipid Mediat. 68-69 2002 3 58
5. 2: review Biochim. Biophys. Acta 1781 2008 1 9
6. 2 enzymes: lessons from transgenic and knockout mice Biochimie 92 2010 561 582
7. 2 enzymes: physical structure, biological function, disease implication, chemical inhibition, and therapeutic intervention Chem. Rev. 111 2011 6130 6185 10.1021/cr200085w
8. 2 research: from cells to animals to humans Prog. Lipid Res. 50 2011 152 192
9. N. Hulo, A. Bairoch, V. Bulliard, L. Cerutti, B.A. Cuche, E. de Castro, C. Lachaize, P.S. Langendijk-Genevaux, and C.J. Sigrist The 20 years of PROSITE Nucleic Acids Res. 36 2008 D245 D249
10. A. Marchler-Bauer, S. Lu, J.B. Anderson, F. Chitsaz, M.K. Derbyshire, C. DeWeese-Scott, J.H. Fong, L.Y. Geer, R.C. Geer, N.R. Gonzales, M. Gwadz, D.I. Hurwitz, J.D. Jackson, Z. Ke, C.J. Lanczycki, F. Lu, S. Lu, G.H. Marchler, M. Mullokandov, M.V. Omelchenko, C.L. Robertson, J.S. Song, N. Thanki, R.A. Yamashita, D. Zhang, N. Zhang, C. Zheng, and S.H. Bryant CDD: a Conserved Domain Database for the functional annotation of proteins Nucleic Acid Res. 39 2011 D225 D229
11. M. Punta, P.C. Coggill, R.Y. Eberhardt, J. Minstry, J. Tate, C. Boursnell, N. Pang, K. Forslund, G. Ceric, J. Clements, A. Heger, L. Holm, E.L. Sonnhammer, S.R. Eddy, A. Bateman, and R.D. Finn The Pfam protein families database Nucleic Acids Res. 40 2012 D290 D301
12. 2 FEBS J. 279 2012 636 649
13. 2 from bacteria to man Comp. Biochem. Physiol. D 7 2012 340 350
14. 2 isolated from the venom of the marine snail Conus magus J. Biol. Chem. 270 1995 3518 3526
15. S.F. Altschul, T.L. Madden, A.A. Schäffer, J. Zhang, Z. Zhang, W. Miller, and D.J. Lipman Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Nucleic Acids Res. 25 1997 3389 3402
16. M.A. Larkin, G. Blackshields, N.P. Brown, R. Chenna, P.A. McGettigan, H. McWilliam, F. Valentin, I.M. Wallace, A. Wilm, R. Lopez, J.D. Thompson, T.J. Gibson, and D.G. Higgins Clustal W and Clustal X version 2.0 Bioinformatics 23 2007 2947 2948
17. G.E. Crooks, G. Hon, J.M. Chandonia, and S.E. Brenner WebLogo: a sequence logo generator Genome Res. 14 2004 1188 1190
18. N. Saitou, and M. Nei The neighbor-joining method: a new method for reconstructing phylogenetic trees Mol. Biol. Evol. 4 1987 406 425
19. J. Felsenstein Confidence limits on phylogenies: an approach using the bootstrap Evolution 39 1985 783 791
20. S. Guindon, and O. Gascuel A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood Syst. Biol. 52 2003 696 704
21. Y. Zhang I-TASSER server for protein 3D structure prediction BMC Bioinform. 9 2008 40 10.1186/1471-2105-9-40
22. 2: characterization, gene cloning, and solution structure J. Biol. Chem. 277 2002 20051 20058
23. 2 enzymes: an update Biochimie 95 2013 43 50
24. 2 biochemistry Cardiovasc. Drug Ther. 23 2009 49 59
25. P.J. Keeling, and J.D. Palmer Horizontal gene transfer in eukaryotic evolution Nat. Rev. Genet. 9 2008 605 618
26. C. Hall, S. Brachat, and F.S. Dietrich Contribution of horizontal gene transfer to the evolution of Saccharomyces cerevisiae Eukaryot. Cell 4 2005 1102 1115 10.1128/EC.4.6.1102-1115.2005
27. N. Kondo, N. Nikoh, N. Ijichi, M. Shimada, and T. Fukatsu Genome fragment of Wolbachia endosymbiont transferred to X chromosome of host insect Proc. Natl. Acad. Sci. U. S. A. 99 2002 14280 14285
28. J.C. Dunning Hotopp, M.E. Clark, D.C. Oliveira, J.M. Foster, P. Fisher, M.C. Muñoz Torres, J.D. Giebel, N. Kumar, N. Ishmael, S. Wang, J. Ingram, R.V. Nene, J. Shepard, J. Tomkins, S. Richards, D.J. Spiro, E. Ghedin, B.E. Slatko, H. Tettelin, and J.H. Werren Widespread lateral gene transfer from intracellular bacteria to multicellular eukaryotes Science 317 2007 1753 1756
29. E. Denker, E. Bapteste, H. Le Guyader, M. Manuel, and N. Rabet Horizontal gene transfer and the evolution of cnidarian stinging cells Curr. Biol. 18 2008 R858 R859
30. J.A. Chapman, E.F. Kirkness, O. Simakov, S.E. Hampson, T. Mitros, T. Weinmaier, T. Rattei, P.G. Balasubramanian, J. Borman, D. Busam, K. Disbennett, C. Pfannkoch, N. Sumin, G.G. Sutton, L.D. Viswanathan, B. Walenz, D.M. Goodstein, U. Hellsten, T. Kawashima, S.E. Prochnik, N.H. Putnam, S. Shu, B. Blumberg, C.E. Dana, L. Gee, D.F. Kibler, L. Law, D. Lindgens, D.E. Martinez, J. Peng, P.A. Wigge, B. Bertulat, C. Guder, Y. Nakamura, S. Ozbek, H. Watanabe, K. Khalturin, G. Hemmrich, A. Franke, R. Augustin, S. Fraune, E. Hayakawa, S. Hayakawa, M. Hirose, J.S. Hwang, K. Ikeo, C. Nishimiya-Fujisawa, A. Ogura, T. Takahashi, P.R. Steinmetz, X. Zhang, R. Aufschnaiter, M.K. Eder, A.K. Gorny, W. Salvenmoser, A.M. Heimberg, B.M. Wheeler, K.J. Peterson, A. Böttger, P. Tischler, A. Wolf, T. Gojobori, K.A. Remington, R.L. Strausberg, J.C. Venter, U. Technau, B. Hobmayer, T.C. Bosch, T.W. Holstein, T. Fujisawa, H.R. Bode, C.N. David, D.S. Rokhsar, and R.E. Steele The dynamic genome of Hydra Nature 462 2010 592 596
31. C.E. Dana, K.M. Glauber, T.A. Chan, D.M. Bridge, and R.E. Steele Incorporation of a horizontally transferred gene into an operon during cnidarian evolution PLos ONE 7 2012 e31643
32. S.D. Bentley, K.F. Chater, A.M. Cerdeño-Tárraga, G.L. Challis, N.R. Thomson, K.D. James, D.E. Harris, M.A. Quail, H. Kieser, D. Harper, A. Bateman, S. Brown, G. Chandra, C.W. Chen, M. Collins, A. Cronin, A. Fraser, A. Goble, J. Hidalgo, T. Hornsby, S. Howarth, C.H. Huang, T. Kieser, L. Larke, L. Murphy, K. Oliver, S. O'Neil, E. Rabbinowitsch, M.A. Rajandream, K. Rutherford, S. Rutter, K. Seeger, D. Saunders, S. Sharp, R. Squares, S. Squares, K. Taylor, T. Warren, A. Wietzorrek, J. Woodward, B.G. Barrell, J. Parkhill, and D.A. Hopwood Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2) Nature 417 2002 141 147
33. 2 in the symbiotic fungus Tuber borchii EMBO J. 20 2001 5079 5090
34. 2 in the filamentous fungus Aspergillus oryzae Fungal Genet. Biol. 47 2010 318 331
35. 2 J. Biol. Chem. 277 2002 20059 20069
36. 2 at atomic resolution Acta Crystallogr. D Biol. Crystallogr. 57 Pt. 4 2001 516 526
37. 2: analysis of internal motion and implication for a catalytic mechanism Proteins 51 2003 453 469
38. 2 J. Biol. Chem. 288 2012 1533 2547
39. 2 up-regulation during mycorrhiza formation in Tuber borchii New Phytol. 167 2005 229 238
40. 2 in the genome of Nematostella vectensis Comp. Biochem. Physiol. D 3 2008 226 233
41. N.H. Putnam, M. Srivastava, U. Hellsten, B. Dirks, J. Chapman, A. Salamov, A. Terry, H. Shapiro, E. Lindquist, V.V. Kapitonov, J. Jurka, G. Genikhovich, I.V. Grigoriev, S.M. Lucas, R.E. Steele, J.R. Finnerty, T. Technau, M.Q. Martindale, and D.S. Rokhsar Sea anemone genome reveals ancestral eumetazoan gene repertoire and genomic organization Science 317 2007 86 94
42. G. Zhang, X. Fang, X. Guo, L. Li, R. Luo, F. Xu, P. Yang, L. Zhang, X. Wang, H. Qi, Z. Xiong, H. Que, Y. Xie, P.W.H. Holland, J. Paps, Y. Zhu, F. Wu, Y. Chen, J. Wang, C. Peng, J. Meng, L. Yang, J. Liu, B. Wen, N. Zhang, Z. Huang, Q. Zhu, Y. Feng, A. Mount, D. Hedgecock, Z. Xu, Y. Liu, T. Domazet-Lošo, Y. Du, X. Sun, S. Zhang, B. Liu, P. Cheng, X. Jiang, J. Li, D. Fan, W. Wang, W. Fu, T. Wang, B. Wang, J. Zhang, Z. Peng, Y. Li, N. Li, J. Wang, M. Chen, Y. He, F. Tan, X. Song, Q. Zheng, R. Huang, H. Yang, X. Du, L. Chen, M. Yang, P.M. Gaffney, S. Wang, L. Luo, Z. She, Y. Ming, W. Huang, S. Zhang, B. Huang, Y. Zhang, T. Qu, P. Ni, G. Miao, J. Wang, Q. Wang, C.E.W. Steinberg, H. Wang, N. Li, L. Qian, G. Zhang, Y. Li, H. Yang, X. Liu, J. Wang, Y. Yin, and J. Wang The oyster genome reveals stress adaptation and complexity of shell formation Nature 490 2012 49 54 10.1038/nature11413
43. R. Sleight, and C. Kent Regulation of phosphatidylcholine biosynthesis in mammalian cells. I. Effects of phospholipase C treatment on phosphatidylcholine metabolism in Chinese hamster ovary cells and LM mouse fibroblasts J. Biol. Chem. 258 1983 824 830
44. S. Rendulic, P. Jagtap, A. Rosinus, M. Eppinger, C. Baar, C. Lanz, H. Keller, C. Lambert, K.J. Evans, A. Goesmann, F. Meyer, R.E. Sockett, and S.C. Schuster A predator unmasked: life cycle of Bdellovibrio bacteriovorus from a genomic perspective Science 303 2004 689 692
45. 2 induce neurite outgrowth in PC12 cells Biochem. J. 376 2003 655 666
46. H. Terlau, and B.M. Olivera Conus venoms: a rich source of novel ion channel-targeted peptides Physiol. Rev. 84 2004 41 68
47. B.G. Fry, K. Roelants, D.E. Champagne, H. Scheib, J.D.A. Tyndall, G.F. King, T.J. Nevalainen, J.A. Norman, R.J. Lewis, R.S. Norton, C. Renjifo, and R.C. Rodriguez de la Vega The toxicogenomic multiverse: convergent recruitment of proteins into animal venoms Annu. Rev. Genomics Hum. Genet. 10 2009 483 511
48. A. Lotan, L. Fishman, Y. Loya, and E. Zlotkin Delivery of a nematocyst toxin Nature 375 1995 456
49. 2 enzymes Toxicon 42 2003 827 840