How a single amino acid change may alter the immunological information of a peptide

Frontiers in Bioscience - Elite

Volumn 4 E, Issue 5, 2012, Pages 1843-1852

  Lucchese, Guglielmo ^a   Sinha, Animesh Amart ^b   Kanduc, Darja ^a  

^a UNIVERSITY OF BARI   (Italy)

^b MICHIGAN STATE UNIVERSITY   (United States)

Author keywords

Epitopic peptides; Immune recognition; Immune response; Immunological information; Rare peptides; Sequence similarity change; Single amino acid change

Indexed keywords

AMINO ACID; EPITOPE; PEPTIDE; PROTEOME;

AMINO ACID SUBSTITUTION; ANTIGEN RECOGNITION; ANTIGENICITY; ARTICLE; HUMAN; IMMUNE RESPONSE; IMMUNITY; IMMUNOGENICITY; NONHUMAN; PATHOGENICITY; PROTEOMICS; AMINO ACID SEQUENCE; CHEMISTRY; IMMUNOLOGY; MOLECULAR GENETICS; SEQUENCE HOMOLOGY;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; MOLECULAR SEQUENCE DATA; PEPTIDES; PROTEOMICS; SEQUENCE HOMOLOGY, AMINO ACID;

EID: 84856480020     PISSN: 19450494     EISSN: 19450508     Source Type: Journal    
DOI: None     Document Type: Article

References (74)

1. T Sato, A Nakashima, L Guo, K Coffman, F Tamanoi: Single amino-acid changes that confer constitutive activation of mTOR are discovered in human cancer. Oncogene 29, 2746-2752 (2010)
2. R Verma, JK Ghosh: Structural and functional changes in a synthetic S5 segment of KvLQT1 channel as a result of a conserved amino acid substitution that occurs in LQT1 syndrome of human. Biochim Biophys Acta 1798, 461-470 (2010)
3. M Fuchs, P Hutzler, G Handschuh, C Hermannstädter, I Brunner, H Höfler, B Luber: Dynamics of cell adhesion and motility in living cells is altered by a single amino acid change in E-cadherin fused to enhanced green fluorescent protein. Cell Motil Cytoskeleton 59, 50-61 (2004) (Pubitemid 39167098)
4. F Rao, G Wen, JR Gayen, M Das, SM Vaingankar, BK Rana, M Mahata, BP Kennedy, RM Salem, M Stridsberg, K Abel, DW Smith, E Eskin, NJ Schork, BA Hamilton, MG Ziegler, SK Mahata, DT O'Connor: Catecholamine releaseinhibitory peptide catestatin (chromogranin A(352-372)): in human autonomic activity and alters risk for hypertension. Circulation 115, 2271-2281 (2007)
5. N Jarousse, RA Grant, JM Hogle, L Zhang, A SenKowski, RP Roos, T Michiels, M Brahic, A McAllister: A single amino acid change determines persistence of a chimeric Theiler's virus. J Virol 68, 3364-3368 (1994) (Pubitemid 24129786)
6. PA Monach, SC Meredith, CT Siegel, H Schreiber: A unique tumor antigen produced by a single amino acid substitution. Immunity 2, 45-59 (1995)
7. LM Mendoza, G Villaflor, P Eden, D Roopenian, N Shastri: Distinguishing self from nonself: immunogenicity of the murine H47 locus is determined by a single amino acid substitution in an unusual peptide. J Immunol 166, 4438-4445 (2001) (Pubitemid 32233727)
8. A Ben-Nun, NK de Rosbo, N Kaushansky, M Eisenstein, L Cohen, JF Kaye, I Mendel: Anatomy of T cell autoimmunity to myelin oligodendrocyte glycoprotein (MOG): prime role of MOG44F in selection and control of MOG-reactive T cells in H-2b mice. Eur J Immunol 36, 478-493 (2006) (Pubitemid 43257471)
9. J Ping, C Li, G Deng, Y Jiang, G Tian, S Zhang, Z Bu, H Chen: Single-amino-acid mutation in the HA alters the recognition of H9N2 influenza virus by a monoclonal antibody. Biochem Biophys Res Commun 371, 168-171 (2008)
10. JD Wrigley, EJ Nunn, O Nyabi, EE Clarke, P Hunt, A Nadin, B De Strooper, MS Shearman, D Beher: Conserved residues within the putative active site of gamma-secretase differentially influence enzyme activity and inhibitor binding. J Neurochem 90, 1312-1320 (2004) (Pubitemid 39223635)
11. J Grunberg, J Walter, H Loetscher, U Deuschle, H Jacobsen, C Haass: Alzheimer's disease associated presenilin-1 holoprotein and its 18-20 kDa C-terminal fragment are death substrates for proteases of the caspase family. Biochemistry 37, 2263-2270 (1998) (Pubitemid 28119299)
12. AS Burguete, TD Fenn, AT Brunger, SR Pfeffer: Rab and Arl GTPase family members cooperate in the localization of the golgin GCC185. Cell 132, 286-298 (2008) (Pubitemid 351181231)
13. M Nellist, O Sancak, MA Goedbloed, C Rohe, D van Netten, K Mayer, A Tucker-Williams, AM van den Ouweland, DJ Halley: Distinct effects of single amino-acid changes to tuberin on the function of the tuberin-hamartin complex. Eur J Hum Genet 13, 59-68 (2005)
14. Y Li, J Ren, W Yu, Q Li, H Kuwahara, L Yin, KL 3rd Carraway, D Kufe: The epidermal growth factor receptor regulates interaction of the human DF3/MUC1 carcinoma antigen with c-Src and beta-catenin. J Biol Chem 276, 35239-35242 (2001)
15. CL Kinlough, PA Poland, JB Bruns, KL Harkleroad, RP Hughey: MUC1 membrane trafficking is modulated by multiple interactions. J Biol Chem 279, 53071-53077 (2004) (Pubitemid 40051807)
16. PK Singh, Y Wen, BJ Swanson, K Shanmugam, A Kazlauskas, RL Cerny, SJ Gendler, MA Hollingsworth: Platelet-derived growth factor receptor beta-mediated phosphorylation of MUC1 enhances invasiveness in pancreatic adenocarcinoma cells. Cancer Res 67, 5201-5210 (2007) (Pubitemid 46997258)
17. L Huang, J Ren, D Chen, Y Li, S Kharbanda, D Kufe: MUC1 cytoplasmic domain coactivates Wnt target gene transcription and confers transformation. Cancer Biol Ther 2, 702-706 (2003)
18. Y Li, H Kuwahara, J Ren, G Wen, D Kufe. The c-Src tyrosine kinase regulates signaling of the human DF3/MUC1 carcinoma-associated antigen with GSK3 beta and beta-catenin. J Biol Chem 276, 6061-6064 (2001)
19. LM Mendoza, P Paz, A Zuberi, G Christianson, D Roopenian, N Shastri: Minors held by majors: the H13 minor histocompatibility locus defined as a peptide/MHC class I complex. Immunity 7, 461-472 (1997) (Pubitemid 27508698)
20. T Higuchi, T Maruyama, A Jaramillo, T Mohanakumar: Induction of obliterative airway disease in murine tracheal allografts by CD8+ CTLs recognizing a single minor histocompatibility antigen. J Immunol 174, 1871-1878 (2005) (Pubitemid 40223926)
21. J Yang, A Jaramillo, W Liu, B Olack, Y Yoshimura, S Joyce, Z Kaleem, T Mohanakumar: Chronic rejection of murine cardiac allografts discordant at the H13 minor histocompatibility antigen correlates with the generation of the H13-specific CD8+ cytotoxic T cells. Transplantation 76, 84-91 (2003) (Pubitemid 36877120)
22. DA Ostrov, MM Roden, W Shi, E Palmieri, GJ Christianson, L Mendoza, G Villaflor, D Tilley, N Shastri, H Grey, SC Almo, D Roopenian, SG Nathenson: How H13 histocompatibility peptides differing by a single methyl group and lacking conventional MHC binding anchor motifs determine self-nonself discrimination. J Immunol 168, 283-289 (2002) (Pubitemid 34014128)
23. LM Brown, RA Papa, MJ Frost, SG Mackintosh, X Gu, RJ Dixon, AD Shannon: A single amino acid is critical for the expression of B-cell epitopes on the helicase domain of the pestivirus NS3 protein. Virus Res 84, 111-124 (2002) (Pubitemid 34251201)
24. D Kanduc: Immunogenicity in peptide-immunotherapy: from self/nonself to similar/dissimilar sequences. Adv Exp Med Biol 640, 198-207 (2008)
25. D Kanduc: Correlating low-similarity peptide sequences and allergenic epitopes. Curr Pharm Des 14, 289-295 (2008) (Pubitemid 351516873)
26. D Kanduc: "Self-nonself" peptides in the design of vaccines. Curr Pharm Des 15, 3283-3289 (2009)
27. D Kanduc: The self/nonself issue: a confrontation between proteomes. Self Nonself 1, 255-258 (2010)
28. D Kanduc: Protein information content resides in rare peptide segments. Peptides 31, 983-988 (2010)
29. CH Wu, LS Yeh, H Huang, L Arminski, J Castro-Alvear, Y Chen, Z Hu, P Kourtesis, RS Ledley, BE Suzek, CR Vinayaka, J Zhang, WC Barker: The Protein Information Resource. Nucleic Acids Res 31, 345-347 (2003) (Pubitemid 36150400)
30. G Lucchese, A Stufano, B Trost, A Kusalik, D Kanduc: Peptidology: short amino acid modules in cell biology and immunology. Amino Acids 33, 703-707 (2007) (Pubitemid 350165425)
31. G Lucchese, A Stufano, D Kanduc: Proteome-guided search for influenza A B-cell epitopes. FEMS Immunol Med Microbiol 57, 88-92 (2009)
32. G Lucchese, A Stufano, D Kanduc: Proposing lowsimilarity peptide vaccines against Mycobacterium tuberculosis. J Biomed Biotechnol 832341 (2010)
33. A Kusalik, M Bickis, C Lewis, Y Li, G Lucchese, FM Marincola, D Kanduc: Widespread and ample peptide overlapping between HCV and Homo sapiens proteomes. Peptides 28, 1260-1267 (2007) (Pubitemid 46843388)
34. G Lucchese, A Stufano, M Calabro', D Kanduc: Charting the peptide crossreactome between HIV-1 and the human proteome. Front Biosci 3, 1385-1400 (2011)
35. G Lucchese, A Stufano, D Kanduc: Searching for an effective, safe and universal anti-HIV vaccine: Finding the answer in just one short peptide. Self Nonself 2, 49-54 (2011)
36. AC May: Percent sequence identity; the need to be explicit. Structure 12, 737-738 (2004) (Pubitemid 38595762)
37. D Kanduc, G Capone, VP Delfino, G Losa: The fractal dimension of protein information. Adv Stud Biol 2, 53-62 (2010)
38. A Mittelman, R Tiwari, G Lucchese, J Willers, R Dummer, D Kanduc: Identification of monoclonal anti- HMW-MAA antibody linear peptide epitope by proteomic database mining. J Invest Dermatol 123, 670-675 (2004) (Pubitemid 39281607)
39. R Dummer, A Mittelman, FP Fanizzi, G Lucchese, J Willers, D Kanduc: Non-self-discrimination as a driving concept in the identification of an immunodominant HMW-MAA epitopic peptide sequence by autoantibodies from melanoma cancer patients. Int J Cancer 111, 720-726 (2004) (Pubitemid 39062894)
40. D Kanduc, FP Fanizzi, G Lucchese, S Stevanovic, AA Sinha, A Mittelman: NMR probing of in silico identification of anti-HPV16 E7 mAb linear peptide epitope. Peptides 25, 243-250 (2004) (Pubitemid 38520054)
41. D Kanduc, L Tessitore, G Lucchese, A Kusalik, E Farber, FM Marincola: Sequence uniqueness and sequence variability as modulating factors of human anti-HCV humoral immune response. Cancer Immunol Immunother 57, 1215-1223 (2008)
42. L Polimeno, A Mittelman, L Gennero, A Ponzetto, G Lucchese, A Stufano, A Kusalik, D Kanduc: Subepitopic dissection of HCV E1315-328HRMAWDMMMNWSPT sequence by similarity analysis. Amino Acids 34, 479-484 (2008) (Pubitemid 351569757)
43. ED Getzoff, HM Geysen, SJ Rodda, H Alexander, JA Tainer JA, RA Lerner: Mechanisms of antibody binding to a protein Science 235, 1191-1196 (1987) (Pubitemid 17034005)
44. HM Geysen, JA Tainer, SJ Rodda, TJ Mason, H Alexander, ED Getzoff, RA Lerner: Chemistry of antibody binding to a protein. Science 235, 1184-1190 (1987) (Pubitemid 17034004)
45. B Hjelm, CD Fernández, J Löfblom, S Ståhl, H Johannesson, J Rockberg, M Uhlén: Exploring epitopes of antibodies toward the human tryptophanyl-tRNA synthetase. N Biotechnol 27, 129-137 (2010)
46. AK Falconar: Monoclonal antibodies that bind to common epitopes on the dengue virus type 2 nonstructural- 1 and envelope glycoproteins display weak neutralizing activity and differentiated responses to virulent strains: implications for pathogenesis and vaccines. Clin Vaccine Immunol 15, 549-561 (2008) (Pubitemid 351967084)
47. AK Falconar: Use of synthetic peptides to represent surface-exposed epitopes defined by neutralizing dengue complex- and flavivirus group-reactive monoclonal antibodies on the native dengue type-2 virus envelope glycoprotein. J Gen Virol 89, 1616-1621 (2008)
48. P Harris, M Hill, HM Vordermeier, M Jones, G Hewinson, H Thangaraj, J Ivanyi: Mutagenesis of an immunodominant T cell epitope can affect recognition of different T and B determinants within the same antigen. Mol Immunol 34, 315-322 (1997) (Pubitemid 27315769)
49. H Alexander, DA Johnson, J Rosen, L Jerabek, N Green, IL Weissman, RA Lerner: Mimicking the alloantigenicity of proteins with chemically synthesized peptides differing in single amino acids. Nature 306, 697-699 (1983) (Pubitemid 14201855)
50. AT Kozhich, RR Caspi, JA Berzofsky, I Gery: Immunogenicity and immunopathogenicity of an autoimmune epitope are potentiated by increasing MHC binding through residue substitution. J Immunol 158, 4145-4151 (1997) (Pubitemid 127483913)
51. R Tiwari, J Geliebter, A Lucchese, A Mittelman, D Kanduc: Computational peptide dissection of Melana/ MART-1 oncoprotein antigenicity. Peptides 25, 1865-1871 (2004) (Pubitemid 39389180)
52. LM Cortes, D Avichezer, PB Silver, D Luger, MJ Mattapallil, CC Chan, RR Caspi: Inhibitory peptide analogs derived from a major uveitogenic epitope protect from antiretinal autoimmunity by inducing type 2 and regulatory T cells. J Leukoc Biol 84, 577-585 (2008)
53. I Mendel, NK de Rosbo, A Ben-Nun: Delineation of the minimal encephalitogenic epitope within the immunodominant region of myelin oligodendrocyte glycoprotein: diverse V beta gene usage by T cells recognizing the core epitope encephalitogenic for T cell receptor V beta b and T cell receptor V beta a H-2b mice. Eur J Immunol 26, 2470-2479 (1996) (Pubitemid 26340952)
54. AL Hartman, L Ling, ST Nichol, ML Hibberd: Wholegenome expression profiling reveals that inhibition of host innate immune response pathways by Ebola virus can be reversed by a single amino acid change in the VP35 protein. J Virol 82, 5348-5358 (2008) (Pubitemid 351705242)
55. V Kim, WR Green: A single amino acid variation within an immunodominant AKR/Gross MuLV cytotoxic Tlymphocyte epitope leads to a loss in immunogenicity. Viral Immunol 11, 197-213 (1998) (Pubitemid 29178835)
56. MW Schreurs, EW Kueter, KB Scholten, FA Lemonnier, CJ Meijer, E Hooijberg: A single amino acid substitution improves the in vivo immunogenicity of the HPV16 oncoprotein E7(11-20) cytotoxic T lymphocyte epitope. Vaccine 23, 4005-4010 (2005) (Pubitemid 40800659)
57. JL Fornek, L Gillim-Ross, C Santos, V Carter, JM Ward, LI Cheng, S Proll, MG Katze, K Subbarao: A singleamino- acid substitution in a polymerase protein of an H5N1 influenza virus is associated with systemic infection and impaired T-cell activation in mice. J Virol 83, 11102-11115 (2009)
58. DE McFarlin, SE Blank, RF Kibler, S McKneally, R Shapira: Experimental allergic encephalomyelitis in the rat: response to encephalitogenic proteins and peptides. Science 179, 478-480 (1973)
59. RF Kibler, RB Fritz, F Chou, CH Jen Chou, NY Peacocke, NM Brown, DE McFarlin: Immune response of Lewis rats to peptide C1 (residues 68-88) of guinea pig and rat myelin basic proteins. J Exp Med 146, 1323-1331 (1977) (Pubitemid 8218412)
60. M Dayan, Z Sthoeger, A Neiman, J Abarbanel, M Sela, E Mozes: Immunomodulation by a dual altered peptide ligand of autoreactive responses to the acetylcholine receptor of peripheral blood lymphocytes of patients with myasthenia gravis. Hum Immunol 65, 571-577 (2004) (Pubitemid 38813408)
61. Z Illes, H Waldner, J Reddy, E Bettelli, LB Nicholson, VK Kuchroo: T cell tolerance induced by cross-reactive TCR ligands can be broken by superagonist resulting in anti-inflammatory T cell cytokine production. J Immunol 175, 1491-1497 (2005) (Pubitemid 41023049)
62. ML Ford, BD Evavold: Degenerate recognition of T cell epitopes: impact of T cell receptor reserve and stability of peptide:MHC complexes. Mol Immunol 40, 1019-1025 (2004) (Pubitemid 38221181)
63. A Mittelman, G Lucchese, A Stufano, D Kanduc: Degenerate binding of tyrosinase peptides to MHC II Ad/Ed molecules. J Exp Ther Oncol 6, 231-239 (2007) (Pubitemid 46789723)
64. E Martinez-Hackert, N Anikeeva, SA Kalams, BD Walker, WA Hendrickson, Y Sykulev: Structural basis for degenerate recognition of natural HIV peptide variants by cytotoxic lymphocytes. J Biol Chem 281, 20205-20212 (2006) (Pubitemid 44065795)
65. D Kanduc: Peptimmunology: immunogenic peptides and sequence redundancy. Curr Drug Discov Technol 2, 239-244 (2005) (Pubitemid 43168115)
66. B Trost, A Kusalik, G Lucchese, G Kanduc: Bacterial peptides are intensively present throughout the human proteome. Self Nonself 1, 71-74 (2010)
67. B Trost, G Lucchese, A Stufano, M Bickis, A Kusalik, D Kanduc D: No human protein is exempt from bacterial motifs, not even one. Self Nonself 1, 328-334 (2010)
68. D Kanduc, A Stufano, G Lucchese, A Kusalik: Massive peptide sharing between viral and human proteomes. Peptides 29, 1755-1766 (2008)
69. D Kanduc: Quantifying the possible cross-reactivity risk of an HPV16 vaccine. J Exp Ther Oncol 8, 65-76 (2009)
70. D Kanduc: Penta- and hexapeptide sharing between HPV16 and Homo sapiens proteomes. Int J Med Med Sci 1, 387 (2009)
71. R Ricco, D Kanduc: Hepatitis B virus and Homo sapiens proteome-wide analysis: A profusion of viral peptide overlaps in neuron-specific human proteins. Biologics 4, 75-81 (2010)
72. D Kanduc: Describing the hexapeptide identity platform between the influenza A H5N1 and Homo sapiens proteomes. Biologics 4, 245-261 (2010)
73. SL Bavaro, D Kanduc: Pentapeptide commonality between Corynebacterium diphtheriae toxin and the Homo sapiens proteome. Immunotherapy 3, 49-58 (2011)
74. SL Bavaro, M Calabro', D Kanduc: Pentapeptide sharing between Corynebacterium diphtheria toxin and the human neural protein network. Immunopharmacol Immunotoxicol 33, 360-372 (2011)