Identification of a novel gene family, paralogs of inhibitor of apoptosis proteins present in plants, fungi, and animals

Apoptosis

Volumn 10, Issue 3, 2005, Pages 471-480

  Higashi, K ^a,d   Takasawa, R ^a   Yoshimori, A ^a   Goh, T ^c   Tanuma, S ^a,b   Kuchitsu, K ^a,c  

^a Genome and Drug Research Center   (Japan)

^b NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY   (Japan)

^c TOKYO UNIVERSITY OF SCIENCE   (Japan)

^d TEIKYO UNIVERSITY OF SCIENCE   (Japan)

Author keywords

Apoptosis; Arabidopsis thaliana; BIR; BLD; Homo sapiens; IAP; ILP

Indexed keywords

APOPTOSIS INHIBITOR; ARABIDOPSIS PROTEIN; ETOPOSIDE;

APOPTOSIS; ARABIDOPSIS; ARTICLE; BACULOVIRUS; EUKARYOTE; FUNGUS; GENE EXPRESSION; GENE IDENTIFICATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLANT; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN MOTIF; SEQUENCE HOMOLOGY; TANDEM REPEAT; THREE DIMENSIONAL IMAGING; ZINC FINGER MOTIF;

AMINO ACID SEQUENCE; ANIMALS; APOPTOSIS; ARABIDOPSIS; CELL LINE; ETOPOSIDE; GENES, FUNGAL; GENES, PLANT; HELA CELLS; HUMANS; INHIBITOR OF APOPTOSIS PROTEINS; PHYLOGENY; PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; ZINC FINGERS;

ANIMALIA; ARABIDOPSIS THALIANA; EUKARYOTA; FUNGI; HOMO SAPIENS; INTRACISTERNAL A-PARTICLES; MAMMALIA;

EID: 21244487103     PISSN: 13608185     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10495-005-1876-1     Document Type: Article

References (56)

1. Raff M. Cell suicide for beginners. Nature 1998; 396: 119-122.
2. Reed JC. Mechanisms of apoptosis. Amer J Pathol 2000; 157: 1415-1430.
3. Deveraux Q, Reed JC. IAP family proteins - suppressors of apoptosis. Gene Dev 1999; 13: 239-252.
4. Miller LK. An exegesis of IAPs: Salvation and surprises from BIR motifs. Trends Cell Biol 1999; 9: 323-328.
5. del Pozo O, Lam E. Caspases and programmed cell death in the hypersensitive response of plants to pathogens. Curr Biol 1998; 8: 1129-1132.
6. Mittler R, Lam E. Sacrifice in the face of foes: Pathogen-induced programmed cell death in plants. Trends Microbiol 1996; 4: 10-15.
7. Ryerson DE, Heath MC. Cleavage of nuclear DNA into oligonucleosomal fragments during cell death induced by fungal infection or by abiotic treatments. Plant Cell 1996; 8: 393-402.
8. Lam E, Kato N, Lawton M. Programmed cell death, mitochondoria and the plant hypersensitive response. Nature 2001; 411: 848-853.
9. Korthout HAAJ, Berecki G, Bruin W, van Duijn B, Wang M. The presence and subcellular localization of caspase 3-like proteinases in plant cells. FEBS Lett 2000; 475: 139-144.
10. Mlejnek P, Procházka S. Activation of caspase-like proteases and induction of apoptosis by isopentenyladenosine in tobacco BY-2 cells. Planta 2002; 215: 158-166.
11. Danon A, Rotari VI, Gordon A, Maihac N, Gallois P. Ultraviolet-C overexposure induces programmed cell death in Arabidopsis, which is mediated by caspase-like activities and which can be suppressed by caspase inhibitors, p35 and defender against apoptotic death. J Biol Chem 2004; 279: 779-787.
12. De Jong AJ, Hoeberichts FA, Yakimova ET, Maximova E, Woltering EJ. Chemical-induced apoptotic cell death in tomato cells: Involvement of caspase-like proteases. Planta 2000; 211: 656-662.
13. Dickman MB, Park YK, Oltersdorf T, Li W, Clemente T, French R. Abrogation of disease development in plants expressing animal antiapoptotic genes. Proc Natl Acad Sci USA 2001; 98: 6957-6962.
14. Lincoln JE, Richael C, Overduin B, Smith K, Bostock R, Gilchrist DG. Expression of the antiapoptotic baculovirus p35 gene in tomato blocks programmed cell death and provides broad-spectrum resistance to disease. Proc Natl Acad Sci USA 2002; 99: 15217-15221.
15. Bateman A, Birney E, Durbin R, Eddy SR, Finn RD, Sonnhammer ELL. Pfam 3-1: 1313 multiple alignments and profile HMMs match the majority of proteins. Nucleic Acids Res 1999; 27: 260-262.
16. Eddy SR. Profile hidden Markov models. Bioinformatics 1998; 14: 755-763.
17. Altschul SF, Madden TL, Schäffer AA, et al. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res 1997; 25: 3389-3402.
18. Thompson JD, Gibson TJ, Plewniak F, Jeanmorgin F, Higgins DG. The CLUSTAL X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 1997; 24: 4876-4882.
19. Thompson JD, Higgins DG, Gibson TJ. Clustal W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 1994; 22: 4673-4680.
20. Saitou N, Nei M. The Neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol Biol Evo 1987; 4: 406-425.
21. Adachi J, Hasegawa M. MOLPHY Version 2.3: Programs for molecular phylogenetics based on maximum likelihood. Comp Sci Mono 1996; 28: 1-150.
22. Sali A, Blundell TL. Comparative protein modeling by satisfaction of spatial restraints. J Mol Biol 1993; 234: 779-815.
23. Marti-Renom MA, Stuart A, Fiser A, Sánchez R, Melo F, Sali A. Comprative protein structure modeling of genes and genomes. Annu Rev Biophys Biomol Struct 2000; 29: 291-325.
24. Fiser A, Do RK, Sali RA. Modeling of loops in protein structures. Protein Science 2000; 9: 1753-1773.
25. Berendsen HJC, van der Spoel D, van Drunen R. GROMACS: A message-passing parallel molecular dynamics implementation. Comp Phys Comm 1995; 91: 43-56.
26. Lindahl E, Hess B, van der Spoel D. GROMACS 3.0: A package for molecular simulation and trajectory analysis. J. Mol Mod 2001; 7: 306-317.
27. Bowie JU, Luthy R, Eisenberg D. A method to identify protein sequences that fold into a known three-dimentional structure. Science 1991; 253: 164-170.
28. Luthy R, Bowie JU, Eisenberg D. Assesment of protein models with three-dimentional profiles. Nature 1992; 356: 83-85.
29. Siokawa D, Tanuma S. Characterization of human DNaseI family endonucleases and activation of DNase γ during apoptosis. Biochemistry 2001; 40: 143-152.
30. Seki M, Narusaka M, Kamiya A, et al. Functional annotation of a full-length Arabidopsis cDNA collection. Science 2002; 296: 141-145.
31. Krishna SS, Majumdar I, Grishin NV. Structural classification of zinc fingers. Nucleic Acids Res. 2003; 31: 532-550.
32. Kawai-Yamada M, Jin L, Yoshinaga K, Hirata A, Uchimiya H. Mammalian Bax-induced plant cell death can be down-regulated by overexpression of Arabidopsis Bax Inhibitor-1 (AtBI-1). Proc Natl Acad Sci USA 2001; 98: 12295-12300.
33. Qiao J, Mitsuhara I, Yazaki Y, et al. Enhanced resistance to salt, cold and wound stresses by overproduction of animal cell death suppressors Bcl-xL and Ced-9 in tobacco cells- their possible contribution through improved function of organella. Plant Cell Physiol 2002; 43: 992-1005.
34. del Pozo O, Lam E. Expression of the baculovirus p35 protein in tobacco affects cell death progression and compromises N gene mediated disease resistance response to tobacco mosaic virus. Mol Plant-Microbe Interact 2003; 6: 485-494.
35. De Jong AJ, Hoeberichts FA, Yakimova ET, Maximova E, Woltering EJ. Chemical-induced apoptotic cell death in tomato cells: Involvement of caspase-like proteases. Planta 2000; 211: 656-662.
36. Elbaz M, Avni A, Weil M. Constitutive caspase-like machinery executes programmed cell death in plant cells. Cell Death Differ 2002; 9: 726-733.
37. Solomon M, Belenghi B, Delledonne M, Menachem E, Levine A. The involvement of cysteine proteases and protease inhibitor genes in the regulation of programmed cell death in plants. Plant Cell 1999; 11: 431-443.
38. van Maanen JMS, Retél J, de Vries J, Pinedo HM. Mechanism of action of antitumor drug etoposide: A review. J Nat Canc Inst 1988; 80: 1526-1533.
39. Tewari M, Quan LT, O'Rourke K, et al. Yama/CPP32 beta, a mammalian homolog of CED-3, is a CrmA-inhibitable protease that cleaves the deeath substrate poly(ADP-ribose) polymerase. Cell 1995; 81: 801-809.
40. Nicholson DW, Ali A, Thornberry NA, et al. Identification and inhibition of the ICE/CED-3 protease necessary for mammalian apoptosis. Nature 1995; 376: 37-43.
41. Liu X, Zou H, Slaughter C, Wang X. DFF, heterodimeric protein that functions downstream of caspase-3 to trigger DNA fragmentation during apoptosis. Cell 1997; 89: 175-184.
42. Ouyang T, Bai R-Y, Bassermann F, et al. Identification and characterization of a nuclear interacting partner of anaplastic lymphoma kinase (NIPA). J Biol Chem 2003; 278: 30028-30036.
43. Silke J, Vaux DL. Two kinds of BIR-containing protein-inhibitors of apoptosis, or required for mitosis. J Cell Sci 2001; 114: 1821-1827.
44. Fraser AG, James, C Evan GI, Hengartner MO. Caenorhabditis elegans inhibitor of apoptosis protein (IAP) homologue BIR-1 plays a conserved role in cytokinesis. Curr Biol 1999; 9: 292-301.
45. Speliotes EK, Uren G, Vaux D, Horvitz HR. The survivin-like C. elegans BIR-1 protein acts with the Aurora-like kinase AIR-2 to affect chromosomes and the spindle midzone. Mol Cell 2000; 6: 211-223.
46. Kallio MJ, Nieminen M, Eriksson JE. Human inhibitor of apoptosis protein (IAP) survivin participates in regulation of chromosome segregation and mitotic exit. FASEB J (Oct. 29, 2001); 10:1096/fj.01-0280fje.
47. Fortugno P, Wall NR, Giodini A, et al. Survivin exists in immunochemically distinct subcellular pools and is involved in spindle microtubule function. J Cell Sci 2001; 115: 575-585.
48. Riedl SJ, Renatus M, Schwarzenbacher R, et al. Structural basis for the inhibition of caspase-3 by XIAP. Cell 2001; 104: 791-800.
49. Takahashi R, Deveraux QL, Tamm I, et al. A single BIR domain of XIAP sufficient for inhibiting caspases. J Biol Chem 1998; 273: 7787-7790.
50. Banks PD, Plescia J, Altieri DC, et al. Survivin does not inhibit caspase-3 activity. Blood 2000; 96: 4002.
51. Yang Y, Fang S, Jensen JP, Weissman AM, Ashwell JD. Ubiquitin protein ligase activity of IAPs and their degradation in proteasomes in response to apoptotic stimuli. Science 2000; 288: 874-877.
52. Li F, Ambrosini G, Chu EY, Plescia J, Tognin S, Marchisio PC, Altieri DC. Control of apoptosis and mitotic spindle checkpoint by survivin. Nature 1988; 396: 580-584.
53. Srinivasula SM, Hegde R, Saleh A, et al. A conserved XIAP-interaction motif in caspase-9 and Smac/DIABLO regulates caspase activity and apoptosis. Nature 2001; 410: 112-116.
54. Crook NE, Clem RJ, Miller LK. An apoptosis-inhibiting baculovirus gene with a zinc finger-like motif. J Virol 1993; 67: 2168-2174.
55. Uren AG, Belharz T, O'Connell MJ, et al. Roll for yeast inhibitor of apoptosis (IAP)-like proteins in cell division. Proc Natl Acad Sci USA 1999; 96: 10170-10175.
56. Rajagopalan S, Balasubramanian MK. Schizosaccharomyces pombe Bir1p a nuclear protein that localizes to kinetochores and the spindle midzone, is essential for chromosome condensation and spindle elongation during mitosis. Genetics 2002; 160: 445-456.