Mass spectrometric identification of serine hydrolase OVCA2 in the medulloblastoma cell line DAOY

Cancer Letters

Volumn 241, Issue 2, 2006, Pages 235-249

  Azizi, Amedeo A ^a   Gelpi, Ellen ^a   Yang, Jae Won ^a   Rupp, Bernhard ^b   Godwin, Andrew K ^c   Slater, Carolyn ^c   Slavc, Irene ^a   Lubec, Gert ^a  

^a MEDICAL UNIVERSITY OF VIENNA   (Austria)

^b LAWRENCE LIVERMORE NATIONAL LABORATORY   (United States)

^c FOX CHASE CANCER CENTER   (United States)

Author keywords

Immunohistochemistry; Mass spectrometry; Medulloblastoma; OVCA2; Two dimensional gel electrophoresis

Indexed keywords

HYDROLASE;

AMINO ACID SEQUENCE; APOPTOSIS; ARTICLE; BIOLOGY; CELL LINE; HUMAN; HUMAN CELL; HUMAN TISSUE; IMMUNOHISTOCHEMISTRY; MASS SPECTROMETRY; MATHEMATICAL COMPUTING; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MEDULLOBLASTOMA; OLIGODENDROGLIA; PREDICTION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DOMAIN; PROTEIN EXPRESSION; PROTEIN INTERACTION; PROTEIN STRUCTURE; TUMOR CELL LINE; TWO DIMENSIONAL GEL ELECTROPHORESIS; WESTERN BLOTTING;

AMINO ACID SEQUENCE; CELL LINE, TUMOR; CEREBELLAR NEOPLASMS; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; HUMANS; MEDULLOBLASTOMA; MOLECULAR SEQUENCE DATA; PEPTIDE MAPPING; PROTEIN PROCESSING, POST-TRANSLATIONAL; PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; SERINE ENDOPEPTIDASES; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION;

EID: 33746866302     PISSN: 03043835     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.canlet.2005.10.023     Document Type: Article

References (52)

1. Schujer M., and Berns E. TP53 and ovarian cancer. Hum. Mutat. 21 (2003) 285-291
2. Schultz D.C., Vanderveer L., Berman D.B., Hamilton T.C., Wong A.J., and Godwin A.K. Identification of two candidate tumor suppressor genes on chromosome 17p13.3. Cancer Res. 56 9 (1996)
3. Rood B.R., Zhang H., Weitman D.M., and Cogen P.H. Hypermethylation of HIC-1 and 17p allelic loss in medulloblastoma. Cancer Res. 62 13 (2002) 3794-3797
4. Phillips N.J., Ziegler M.R., Radford D.M., Fair K.L., Steinbrueck T., Xynos F.P., et al. Allelic deletion on chromosome 17p13.3 in early ovarian cancer. Cancer Res. 56 3 (1996) 606-611
5. Phillips N., Ziegler M., Saha B., and Xynos F. Allelic loss on chromosome 17 in human ovarian cancer. Int. J. Cancer 54 1 (1993) 85-91
6. Prowse A.H., Vanderveer L., Milling S.W.F., Pan Z.Z., Dunbrack R.L., Xu X.X., et al. OVCA2 is downregulated and degraded during retinoid induced apoptosis. Int. J. Cancer 99 2 (2002) 185-192
7. Jensen M.R., and Helin K. OVCA1, emerging as a bona fide tumor suppressor. Genes Dev. 18 3 (2004) 245-248
8. Chen C.M., and Behringer R.R. OVCA1: tumor suppressor gene. Curr. Opin. Genet. Dev. 15 1 (2005) 49-54
9. Bruening W., Prowse A.H., Schultz D.C., Holgado-Madruga M., Wong A., and Godwin A.K. Expression of OVCA1, a candidate tumor suppressor, is reduced in tumors and inhibits growth of ovarian cancer cells. Cancer Res. 59 19 (1999) 4973-4983
10. Baxter S., Rosenblum J.S., Knutson S., Nelson M.R., Montimurro J.S., Di Gennaro J.A., et al. Synergistic computational and experimental proteomics approaches for more accurate detection of active serine hydrolases in yeast. Mol. Cell Proteomics. 3 3 (2004) 209-225
11. Gruber-Olipitz M., Afjehi-Sadat L., Felizardo M., Slavc I., and Lubec G. Proteomic determination of metabolic protein expression in ten different tumor cell lines. Cancer Genomics. Proteomics. 1 (2004) 311-338
12. Pollak D., Krapfenbauer K., Fountoulakis M., Peyrl A., and Lubec G. Expressional pattern of known and predicted signaling proteins in seven human cell lines. J. Chromatogr. B Anal. Technol. Biomed. Life Sci. 808 (2004) 185-208
13. J.E. Oh, K.R. Karlmark, J.H. Shin, A. Freilinger, M. Hengstschläger, G. Lubec, Differentiation of neuroblastoma cell line N1E-115 involves several signaling cascades, Neurochem. Res. 30 (3) (2005) 333-348.
14. Afjehi-Sadat L., Krapfenbauer K., Fountoulakis M., Frischer T., Slavc I., and Lubec G. Validation of hypothetical nucleic acid binding proteins in human bronchial epithelial, mesothelial, amnion, kidney and lymphocyte cell lines by proteomics. Curr. Proteomics. 1 (2004) 297-313
15. Bradford M.M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72 (1976) 248-254
16. Weitzdoerfer R., Fountoulakis M., and Lubec G. Reduction of actin-related protein complex 2/3 in fetal down syndrome brain. Biochem. Biophys. Res. Commun. 293 (2002) 836-841
17. Suckau D., Resemann A., Schuerenberg M., Hufnagel P., Franzen J., and Holle A. A novel MALDI LIFT-TOF/TOF mass spectrometer for proteomics. Anal. Bioanal. Chem. 376 (2003) 952-965
18. Yang J.W., Czech T., and Lubec G. Proteomic profiling of human hippocampus. Electrophoresis 25 (2004) 1169-1174
19. Berndt P., Hobohm U., and Langen H. Reliable automatic protein identification from matrix-assisted laser desorption/ionization mass spectrometric peptide fingerprints. Electrophoresis 20 (1999) 3521-3526
20. Peyrl A., Krapfenbauer K., Slavc I., Yang J.W., Strobel T., and Lubec G. Protein profiles of medulloblastoma cell lines DAOY and D283: identification of tumor-related proteins and principles. Proteomics 3 9 (2003) 1781-1800
21. Boeckmann A., Bairoch R., Apweiler M.C., Blatter A., Estreicher E., Gasteiger M.J., et al. The Swiss-Prot protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res. 31 (2003) 365-370
22. Yuan Y.P., Eulenstein O., Vingron M., and Bork P. Towards detection of orthologues in sequence databases. Bioinformatics 14 (1998) 285-289
23. Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25 17 (1997) 3389-3402
24. Marchler-Bauer A., and Bryant S.H. CD-Search: protein domain annotations on the fly. Nucleic Acids Res. 32 (2004) W327-W331 (Web Server issue)
25. Bateman A., Coin L., Durbin R., Finn R.D., Hollich V., Griffiths-Jones S., et al. The pfam protein families database. Nucleic Acids Res. 32 (2004) D138-D141 (Database Issue)
26. Servant F., Bru C., Carrere S., Courcelle E., Gouzy J., Peyruc D., and Kahn D. ProDom: automated clustering of homologous domains. Brief. Bioinform. 3 3 (2002) 246-251
27. Letunic I., Copley R.R., Schmidt S., Ciccarelli F.D., Doerks T., Schultz J., et al. SMART 4.0: towards genomic data integration. Nucleic Acids Res. 32 Database issue (2004) D142-D144
28. von Mering C., Jensen L.J., Snel B., Hooper S.D., Krupp M., Foglierini M., et al. STRING: known and predicted protein-protein associations, integrated and transferred across organisms. Nucleic Acids Res. 33 Database Issue (2005) D433-D437
29. Puntervoll P., Linding R., Gemund C., Chabanis-Davidson S., Mattingsdal M., Cameron S., et al. ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins. Nucleic Acids Res. 31 (2003) 3625-3630
30. Blom N., Gammeltoft S., and Brunak S. Sequence- and structure-based prediction of eukaryotic protein phosphorylation sites. J. Mol. Biol. 294 5 (1999) 1351-1362
31. R. Gupta, E. Jung, S. Brunak, Prediction of N-glycosylation sites in human proteins (in preparation).
32. Julenius K., Mølgaard A., Gupta R., and Brunak S. Prediction, conservation analysis, and structural characterization of mammalian mucin-type O-glycosylation sites. Glycobiology 15 2 (2005) 153-164
33. Eisenhaber B., Bork P., and Eisenhaber F. Prediction of potential GPI-modification sites in proprotein sequences. J. Mol. Biol. 292 3 (1999) 741-758
34. Bendtsen J.D., Nielsen H., von Heijne G., and Brunak S. Improved prediction of signal peptides: signalP 3.0. J. Mol. Biol. 340 4 (2004) 783-795
35. Nakai K., and Horton P. PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. Trends Biochem. Sci. 24 1 (1999) 34-36
36. S.J. Hua, Z. Sun, Support vector machine approach for protein subcellular localization prediction, Bioinformatics 17 (8) (2001) 721-728.
37. Teodorescu O., Galor T., Pillardy J., and Elber R. Enriching the sequence substitution matrix by structural information. Proteins 54 (2004) 41-48
38. Marti-Renom M.A., Stuart A., Fiser A., Sanchez R., Melo F., and Sali A. Comparative protein structure modeling of genes and genomes. Annu. Rev. Biophys. Biomol. Struct. 29 (2000) 291-325
39. Sippl M.J. Knowledge-based potentials for proteins. Curr. Opin. Struct. Biol. 5 (1995) 229-235
40. Abagyan R., Totrov M., and Kuznetsov D. ICM: a new method for protein modeling and design. Applications to docking and structure prediction from the distorted native conformation. J. Comput. Chem. 15 (1994) 488-506
41. Laskowski R.A., MacArthur M.W., Moss D.S., and Thornton J.M. PROCHECK: a program to check the stereochemical quality of protein structures. J. Appl. Crystallogr 26 (1993) 283-291
42. Zamore P.D., Williamson J.R., and Lehmann R. The Pumilio protein binds RNA through a conserved domain that defines a new class of RNA-binding proteins. RNA 3 12 (1997) 1421-1433
43. Unger G.M., Davis A.T., Slaton J.W., and Ahmed K. Protein kinase CK2 as regulator of cell survival: implications for cancer therapy. Curr. Cancer Drug Targets 4 1 (2004) 77-84
44. Xie S., Xie B., Lee M.Y., and Dai W. Regulation of cell cycle checkpoints by polo-like kinases. Oncogene 24 2 (2005) 277-286
45. Doong H., Vrailas A., and Kohn E.C. What's in the 'BAG'?-a functional domain analysis of the BAG-family proteins. Cancer Lett. 188 1-2 (2002) 25-32
46. CCP4. The CCP4 suite: programs for protein crystallography. Acta Crystallogr. D50 (1994) 760-763
47. Fountoulakis M. Proteomics: current technologies and applications in neurological disorders and toxicology. Amino Acids 21 4 (2001) 363-381
48. Lubec G., Krapfenbauer K., and Fountoulakis M. Proteomics in brain research: potentials and limitations. Prog. Neurobiol. 69 3 (2003) 193-211
49. Lovell S.C., Davis I.W., Arendall W.B., de Bakker III P.I., Word J.M., Prisant M.G., et al. Structure validation by C-alpha geometry: phi, psi and C-beta deviation. Proteins 50 (2003) 437-450
50. Quevillon-Cheruel S., Leulliot N., Graille M.N., Coste F., Benedetti H., Zelwer C., et al. Crystal structure of yeast YHR049W/FSH1, a member of the serine hydrolase family. Protein Sci. 14 (2005) 1350-1356
51. Abagyan R.A., and Totrov M.M. High-throughput docking for lead generation. Curr. Opin. Chem. Biol. 5 (2001) 375-382
52. Mulder N.J., Apweiler R., Attwood T.K., Bairoch A., Bateman A., Binns D., et al. Interpro-an integrated documentation resource for protein families, domains and functional sites. Brief. Bioinform. 3 3 (2002) 285-295