Systematic analysis of human kinase genes: A large number of genes and alternative splicing events result in functional and structural diversity

BMC Bioinformatics

Volumn 6, Issue SUPPL.4, 2005, Pages

  Milanesi, Luciano ^a,b   Petrillo, Mauro ^c   Sepe, Leandra ^a,d   Boccia, Angelo ^c   D'Agostino, Nunzio ^a   Passamano, Myriam ^a   Di Nardo, Salvatore ^a   Tasco, Gianluca ^a,e   Casadio, Rita ^e   Paolella, Giovanni ^c,d,f  

^a CNR   (Italy)

^b CILEA   (Italy)

^c CEINGE BIOTECNOLOGIE AVANZATE   (Italy)

^d UNIVERSITY OF NAPLES FEDERICO II   (Italy)

^e UNIVERSITY OF BOLOGNA   (Italy)

^f UNIVERSITY OF MOLISE   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

ALTERNATIVE SPLICING; COMPARATIVE ANALYSIS; COMPUTATIONAL ANALYSIS; COMPUTATIONAL STUDIES; DOMAIN DISTRIBUTION; STRUCTURAL DIVERSITY; SUBCELLULAR LOCALIZATIONS; SYSTEMATIC ANALYSIS;

BIOCHEMISTRY; COVALENT BONDS; ENZYMES; PROTEINS;

GENES;

CYSTEINE; DISULFIDE; MEMBRANE PROTEIN; PHOSPHOTRANSFERASE; PROTEOME;

ACCURACY; ALTERNATIVE RNA SPLICING; ARTICLE; AUTOMATION; CHROMOSOME 1; CHROMOSOME 11; CHROMOSOME 13; CHROMOSOME 15; CHROMOSOME 16; COMPUTER ANALYSIS; COMPUTER MODEL; CONTROLLED STUDY; ENZYME STRUCTURE; EXON; GENE FUNCTION; GENE IDENTIFICATION; GENE LOCATION; GENE NUMBER; GENE STRUCTURE; GENETIC CODE; GENETIC DATABASE; GENETIC ORGANIZATION; GENETIC VARIABILITY; GENOME ANALYSIS; HUMAN GENETICS; INTERNET; PREDICTION; PROTEIN DOMAIN; PROTEIN FAMILY; PSEUDOGENE; STRUCTURE ANALYSIS; X CHROMOSOME; ALGORITHM; ANIMAL; APOPTOSIS; BIOLOGICAL MODEL; BIOLOGY; CELL PROLIFERATION; CHROMOSOME MAP; COMPUTER PROGRAM; GENE EXPRESSION REGULATION; GENETICS; GENOME; HUMAN; MOLECULAR GENETICS; MOUSE; MULTIGENE FAMILY; PROCEDURES; PROTEIN DATABASE; PROTEIN MOTIF; PROTEIN TERTIARY STRUCTURE; SEQUENCE ANALYSIS; STRUCTURE ACTIVITY RELATION;

ALGORITHMS; ALTERNATIVE SPLICING; AMINO ACID MOTIFS; ANIMALS; APOPTOSIS; CELL PROLIFERATION; CHROMOSOME MAPPING; COMPUTATIONAL BIOLOGY; DATABASES, GENETIC; DATABASES, PROTEIN; DISULFIDES; EXONS; GENE EXPRESSION REGULATION, ENZYMOLOGIC; GENETIC VARIATION; GENOME; HUMANS; INTERNET; MICE; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; PHOSPHOTRANSFERASES; PROTEIN STRUCTURE, TERTIARY; PROTEOME; SEQUENCE ANALYSIS; SOFTWARE; STRUCTURE-ACTIVITY RELATIONSHIP;

EID: 33947394888     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-6-S1-S20     Document Type: Article

References (18)

1. Cohen P: The role of protein phosphorylation in human health and disease. The Sir Hans Krebs Medal Lecture. Eur J Biochem 2001, 268(19):5001-5010.
2. Hanks SK: Genomic analysis of the eukaryotic protein kinase superfamily: a perspective. Genome Biol 2003, 4(5):111.
3. Bairoch A, Apweiler R, Wu CH, Barker WC, Boeckmann B, Ferro S, Gasteiger E, Huang H, Lopez R, Magrane M, Martin MJ, Natale DA, O'Donovan C, Redaschi N, Yeh LS: The Universal Protein Resource (UniProt). Nucleic Acids Res 33(Database):D154-9.
4. Mulder NJ, Apweiler R Attwood TK, Bairoch A, Bateman A, Binns D, Bradley P, Bork P, Bucher P, Cerutti L, Copley R, Courcelle E, Das U, Durbin R, Fleischmann W, Gough J, Haft D, Harte N, Hulo N, Kahn D, Kanapin A, Krestyaninova M, Lonsdale D, Lopez R, Letunic I, Madera M, Maslen J, McDowall J, Mitcheil A, Nikolskaya AN, Orchard S, Pagni M, Ponting CP, Quevillon E, Selengut J, Sigrist CJ, Silventoinen V, Studholme DJ, Vaughan R Wu CH: InterPro, progress and status in 2005. Nucleic Acids Res 2005, 33(Database):D201-5.
5. Hubbard T, Andrews D, Caccamo M, Cameron G, Chen Y, Clamp M, Clarke L, Coates G, Cox T, Cunningham F, Curwen V, Cutts T, Down T, Durbin P, Fernandez-Suarez XM, Gilbert J, Hammond M, Herrero J, Hotz H, Howe K, Iyer V, jekosch K, Kahari A, Kasprzyk A, Keefe D, Keenan S, Kokocinsci F, London D, Longden I, McVicker G, Melsopp C, Meidl P, Potter S, Proctor G, Rae M, Rios D, Schuster M, Searle S, Severin J, Slater G, Smedley D, Smith J, Spooner W, Stabenau A, Stalker J, Storey R, Trevanion S, Ureta-Vidal A, Vogel J, White S, Woodwark C, Birney E Ensembi 2005. Nucleic Acids Res 33(Data-base): D447-53. 2005 Jan 1
6. Manning G, Whyte DB, Martinez R, Hunter T, Sudarsanam S: The protein kinase complement of the human genome. Science 2002, 298(5600):1912-34.
7. Caenepeel S, Charydczak G, Sudarsanam S, Hunter T, Manning G: The mouse kinome: Discovery and comparative genomics of all mouse protein kinases. PNAS 2004, 101:11707-11712.
8. Krupa A, Srinivasan N: The repertoire of protein kinases; encoded in the draft version of the human genome: Atypical variations and uncommon domain combinations. Genome Biol 2002, 3(12):RESEARCH0066.
9. FarTselli P, Finocchiaro G, Casadio R: SPEPlip: the detection of signal peptide and lipoprotein cleavage sites. Bioinformatics 19(18):2498-9. 2003, Dec 12
10. Martelli PL, Fariselli P, Casadio R: An ENSEMBLE machine learning approach for the prediction of all-alpha membrane proteins. Bioinformatics 2003, 19(Suppl 1):i205-i211.
11. Boccia A, Petrillo M, di Bernardo D, Guffanti A, Mignone F, Confalonieri S, Luzi L, Pesole G, Paolella. G, Ballabio A, Banfi S: DG-CST (Disease Gene Conserved Sequence Tags), a database of human-mouse conserved elements associated to disease genes. Nucleic Acids Res 33(Database):D505-10. 2005, Jan 1
12. Johnson DE, Lu J, Chen E, Werner S, Williams LT: The human fibroblast growth factor receptor genes: A common structural arrangment underlies the mechanism for generating receptor forms that differ in their third immunoglobulin domain. Mol Cell Biol 1991, 11(9):4627-4634.
13. Werner S, Duan DS, de Vries C, Peters KG, Johnson DE, Williams LT: Differential splicing in the extracellular region of fibroblast growth factor receptor I generates receptor variants with different ligand-binding specificities. Mol Cell Biol 1992, 12(1):82-8.
14. S Beer HD, Vindevoghel L, Gait MJ, Revest JM, Duan DR, Mason I, Dickson C, Werner S: Fibroblast growth factor (FGF) receptor I-IIIb is a naturally occurring functional receptor for FGFs that is preferentially expressed in the skin and the brain. J Biol Chem 275(21):16091-7. 2000 May 26
15. Sassa T, Gomi H, Itohara S: Postnatal expression of Cdld2 in mouse brain revealed by LacZ inserted into the Cdkl2 locus. Cell Tissue Res 2004, 315(2):147-56. Epub 2003 Nov 7.
16. Nezu J, Oku A, Jones MH, Shimane M: Identification of two novel human putative serine/threonine kinases, VRK1 and VRK2, with structural similarity to vaccinia virus BIR kinase. Genomics 45(2):327-31. 1997, Oct 15
17. Vega FM, Sevilla A, Lazo PA: P53 Stabilization and accumulation induced by human vaccinia-related kinase I. Mol Cell Biol 2004, 24(23):10366-60.
18. Burge C, Karlin S: Prediction of complete gene structures in human genomic DNA. J Mol Biol 1997, 268:78-94.