Bioinformatic analysis of toll-like receptor sequences and structures

Methods in Molecular Biology

Volumn 517, Issue , 2009, Pages 69-79

  Monie, Tom P ^a   Gay, Nicholas J ^a   Gangloff, Monique ^a  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

Bioinformatics; FUGUE; Homology; Sequence alignment; Sequence comparison; Structure validation; TLR; Toll interleukin 1 receptor (TIR) domain; Toll like receptor

Indexed keywords

TOLL LIKE RECEPTOR;

AMINO ACID SEQUENCE; ANIMAL; ARTICLE; BIOLOGY; CHEMISTRY; HUMAN; METABOLISM; METHODOLOGY; PROTEIN MULTIMERIZATION; PROTEIN PROCESSING; SEQUENCE ANALYSIS;

AMINO ACID SEQUENCE; ANIMALS; COMPUTATIONAL BIOLOGY; HUMANS; PROTEIN MULTIMERIZATION; PROTEIN PROCESSING, POST-TRANSLATIONAL; SEQUENCE ANALYSIS, PROTEIN; TOLL-LIKE RECEPTORS;

EID: 65649084074     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-59745-541-1_5     Document Type: Article

References (12)

1. Akira, S. & Takeda, K. (2004). Toll-like receptor signalling. Nat Rev Immunol 4, 499-511. (Pubitemid 38931765)
2. Gay, N. J. & Gangloff, M. (2007). Structure and function of toll receptors and their ligands. Annu Rev Biochem 76, 141-65.
3. Gay, N. J., Gangloff, M. & Weber, A. N. (2006). Toll-like receptors as molecular switches. Nat Rev Immunol 6, 693-8. (Pubitemid 44298218)
4. Xu, Y., Tao, X., Shen, B., Horng, T., Medzhitov, R., Manley, J. L. & Tong, L. (2000). Structural basis for signal transduction by the Toll/interleukin-1 receptor domains. Nature 408, 111-5.
5. Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. (1990). Basic local alignment search tool. J Mol Biol 215, 403-10.
6. Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W. & Lipman, D. J. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25, 3389-402. (Pubitemid 27359211)
7. Chenna, R., Sugawara, H., Koike, T., Lopez, R., Gibson, T. J., Higgins, D. G. & Thompson, J. D. (2003). Multiple sequence alignment with the Clustal series of programs. Nucleic Acids Res 31, 3497-500. (Pubitemid 37442184)
8. Shi, J., Blundell, T. L. & Mizuguchi, K. (2001). FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties. J Mol Biol 310, 243-57. (Pubitemid 32619966)
9. Mizuguchi, K., Deane, C. M., Blundell, T. L., Johnson, M. S. & Overington, J. P. (1998). JOY: protein sequence-structure representation and analysis. Bioinformatics 14, 617-23. (Pubitemid 28461583)
10. Mizuguchi, K., Deane, C. M., Blundell, T. L. & Overington, J. P. (1998). HOMSTRAD: a database of protein structure alignments for homologous families. Protein Sci 7, 2469-71. (Pubitemid 28506965)
11. Rowe, D. C., McGettrick, A. F., Latz, E., Monks, B. G., Gay, N. J., Yamamoto, M., Akira, S., O'Neill, L. A., Fitzgerald, K. A. & Golenbock, D. T. (2006). The myristoylation of TRIF-related adaptor molecule is essential for Toll-like receptor 4 signal transduction. Proc Natl Acad Sci USA 103, 6299-304.
12. Nunez Miguel, R., Shi, J. & Mizuguchi, K. (2001). Protein Fold Recognition and Comparative Modeling Using HOMSTRAD, JOY, and FUGUE. In Protein Structure Prediction: Bioinformatic Approach (Tsigelny, I. F., ed.). International University Line, La Jolla, CA.