Identification of proteins associated with amyloidosis by polarity index method.
作者： Carlos Polanco , José Lino Samaniego , Vladimir N. Uversky , Jorge Alberto Castañón-González , Thomas Buhse
关键词: Membrane protein 、 Peptide sequence 、 Chemistry 、 Protein aggregation 、 Amino acid 、 Amyloid 、 Biochemistry 、 UniProt 、 Intrinsically disordered proteins 、 Globular protein
摘要: There is a natural protein form, insoluble and resistant to proteolysis, adopted by many proteins independently of their amino acid sequences via specific misfolding-aggregation process. This dynamic process occurs in parallel with or as an alternative physiologic folding, generating toxic aggregates that are deposited accumulated various organs tissues. These proteinaceous deposits typically represent bundles β-sheet-enriched fibrillar species known the amyloid fibrils responsible for serious pathological conditions, including but not limited neurodegenerative diseases, grouped under term amyloidoses. The might adopt this conformation some globular natively unfolded (or intrinsically disordered) proteins. Our work shows disordered ordered can be reliably identified, discriminated, differentiated analyzing polarity profiles generated using computational tool index method (Polanco & Samaniego, 2009; Polanco et al., 2012; 2013; 2013a; 2014; 2014a; 2014b; 2014c; 2014d). We also show expressed neurons from these two groups based on profiles, used identify associated efficiency proposed high (i.e. 70%) evidenced analysis peptides APD2 database (2012), AVPpred (2013), CPPsite set selective antibacterial del Rio al. (2001), sets folded Oldfield (2005), human revised neurons, non-human Uniprot (2014), amyloidogenic AmyPDB (2014).
ptbioch.edu.pl
sci-hub.se 参考文章(206)
Lawrence B. Holder, Jacek P. Kukluk, Diane J. Cook, Chang Hun You, Learning Node Replacement Graph Grammars in Metabolic Pathways. BIOCOMP. pp. 44- 50 ,(2007)
M.R. García-Villegas, F.M. De La Vega, J.M. Galindo, M. Segura, R.H. Buckingham, G. Guarneros, Peptidyl‐tRNA hydrolase is involved in lambda inhibition of host protein synthesis. The EMBO Journal. ,vol. 10, pp. 3549- 3555 ,(1991) , 10.1002/J.1460-2075.1991.TB04919.X
Daniela S Gerhard, L Wagner, EA Feingold, CM Shenmen, LH Grouse, G Schuler, SL Klein, S Old, R Rasooly, P Good, M Guyer, AM Peck, JG Derge, D Lipman, FS Collins, W Jang, S Sherry, M Feolo, L Misquitta, E Lee, K Rotmistrovsky, SF Greenhut, CF Schaefer, K Buetow, TI Bonner, D Haussler, J Kent, M Kiekhaus, T Furey, M Brent, C Prange, K Schreiber, N Shapiro, NK Bhat, RF Hopkins, F Hsie, T Driscoll, MB Soares, TL Casavant, TE Scheetz, Brown-stein MJ, TB Usdin, S Toshiyuki, P Carninci, Y Piao, DB Dudekula, MS Ko, K Kawakami, Y Suzuki, S Sugano, CE Gruber, MR Smith, B Simmons, T Moore, R Waterman, SL Johnson, Y Ruan, CL Wei, S Mathavan, PH Gunaratne, J Wu, AM Garcia, SW Hulyk, E Fuh, Y Yuan, A Sneed, C Kowis, A Hodgson, DM Muzny, J McPherson, RA Gibbs, J Fahey, E Helton, M Ketteman, A Madan, S Rodrigues, A Sanchez, M Whiting, A Madari, AC Young, KD Wetherby, SJ Granite, PN Kwong, CP Brinkley, RL Pearson, GG Bouffard, RW Blakesly, ED Green, MC Dickson, AC Rodriguez, J Grimwood, J Schmutz, RM Myers, YS Butterfield, M Griffith, OL Griffith, MI Krzywinski, N Liao, R Morin, R Morrin, D Palmquist, AS Petrescu, U Skalska, DE Smailus, JM Stott, A Schnerch, JE Schein, SJ Jones, RA Holt, A Baross, MA Marra, S Clifton, KA Makowski, S Bosak, J Malek, The status, quality, and expansion of the NIH full-length cDNA project: The Mammalian Gene Collection (MGC) Genome Research. ,vol. 14, pp. 2121- 2127 ,(2004) , 10.1101/GR.2596504
Kayo Maeda, G. Geoff Kneale, Akira Tsugita, Nicholas J. Short, R.N. Perham, Diana F. Hill, George B. Petersen, The DNA-binding protein of Pf1 filamentous bacteriophage: amino-acid sequence and structure of the gene. The EMBO Journal. ,vol. 1, pp. 255- 261 ,(1982) , 10.1002/J.1460-2075.1982.TB01156.X
Jong S. Lee, Gynheung An, James D. Friesen, Katsumi Isono, Cloning and the nucleotide sequence of the genes for Escherichia coli ribosomal proteins L28 (rpmB) and L33 (rmpG) Molecular and General Genetics MGG. ,vol. 184, pp. 218- 223 ,(1981) , 10.1007/BF00272908
Masayori Inouye, Marcelo Jacobs Lorena, Akira Tsugita, The Amino Acid Sequence of T4 Phage Lysozyme Journal of Biological Chemistry. ,vol. 246, pp. 4100- 4100 ,(1971) , 10.1016/S0021-9258(18)62146-5
Daniel G. Tenen, David M. Mastrianni, Peter F. Weller, Steven J. Ackerman, Helene F. Rosenberg, David T. Chin, Anne Nicholson-Weller, Joshua C. Bennett, Stephanie E. Corrette, Molecular cloning and characterization of human eosinophil Charcot-Leyden crystal protein (lysophospholipase). Similarities to IgE binding proteins and the S-type animal lectin superfamily. Journal of Immunology. ,vol. 150, pp. 456- 468 ,(1993)
V I Zannis, J McPherson, G Goldberger, S K Karathanasis, J L Breslow, Synthesis, intracellular processing, and signal peptide of human apolipoprotein E. Journal of Biological Chemistry. ,vol. 259, pp. 5495- 5499 ,(1984) , 10.1016/S0021-9258(18)91039-2
R. Zakut-Houri, B. Bienz-Tadmor, D. Givol, M. Oren, Human p53 cellular tumor antigen: cDNA sequence and expression in COS cells. The EMBO Journal. ,vol. 4, pp. 1251- 1255 ,(1985) , 10.1002/J.1460-2075.1985.TB03768.X
T Jia, C Rosen, B K Joseph, H Ji, Y E Shi, M Wang, Y E Liu, G Xiao, J Liu, Identification of a Breast Cancer-specific Gene, BCSG1, by Direct Differential cDNA Sequencing Cancer Research. ,vol. 57, pp. 759- 764 ,(1997)