Protein Function Analysis

Gene Quiz Protein function analysis based on sequence http //www.sander.ebi.dc.uk/gqsrv/submit... 

Hu, Z., Barker, W. C. (2004). The iProClass integrated database for protein functional analysis. Comput. Biol. Chem. 28, 87-96. 

Transfected-cell arrays have been applied to several aspects of protein functional analysis. Cell array-driven protein subcellular localization studies were mentioned previously in this review. In another example, the combination of transfected-cell technology with the mammalian two-hybrid system led to a powerful tool for screening whole cDNA libraries for proteins interacting with the gene product used as bait. An advantage of this PPI screening system is that the assay is performed in mammalian cells. Thus, interactions dependent on PTMs can be detected (Fiebitz et al., submitted). 

Also databases of scientific literature (such as PUBMED, MEDLINE) provide additional functionality, e.g. they can search for similar articles based on word-usage analysis. Text recognition systems are being developed that automatically extract knowledge about protein function from the abstracts of scientific articles, notably on protein-protein interactions. 

Zahedi R, Bissler J, Davis AR. Andreadis C. Wisnieski J Unique Cl inhibitor dysfunction in a kindred without angioedema. II. Identification of an Ala443 Val substitution and functional analysis 92 of the recombinant mutant protein. J Clin Invest 1995 95 1299-1305. 

Rothmel, RK, DL Shinbarger, MR Parsek, TL Aldrich, AM Chakrabarty (1991) Functional analysis of the Pseudomonas putida regulatory protein CatR transcriptional studies and determination of the CatR DNA-binding site by hydroxyl-radical footprinting. J Bacterial 173 4717-4724. 

Functional analysis using peptide and protein arrays... 

Pellegrini, M., Marcotte, E. M., Thompson, M. J., Eisenberg, D., and Yeates, T. O. (1999). Assigning protein functions by comparative genome analysis Protein phylogenetic profiles. Proc. Natl. Acad. Sci. USA 96, 4285-4288. 

Ballesteros, J. A., Shi, L., and Javitch, J. A., Structural mimicry in G-protein-coupled receptors implications of the high-resolution structure of rhodopsin for structure-function analysis of rhodopsin-like receptors, Mol. Pharmacol., 60(1), 1-19, 2001. 

It is well accepted that MDMA produces 5-HT depletions in rat CNS, but much less attention has been devoted to the effects of MDMA on established markers of neurotoxicity such as cell death, silver-positive staining, and reactive gliosis. Support for the hypothesis of MDMA-induced axotomy relies heavily on immunohistochemical analysis of 5-HT levels, which could produce misleading results if not validated by other methods. For example, MDMA-induced loss of 5-HT could be due to persistent adaptive changes in gene expression or protein function, reflecting a state of metabolic quiescence rather than neurotoxic damage. Table 7.3 summarizes the effects of MDMA on hallmark measures of neurotoxicity. 

Bill, R.M. (2001) Yeast - a panacea for the structure—function analysis of membrane proteins Current Genetics, 40 (3), 157-171. 

Although fully devoted to the Health Sector, Biacore offers a set of services, which might be of great interest to developmental activities in other industrial areas. Then-focus is on systems for protein interaction analysis, which yield data on the interactions between proteins and other molecules. Protein functionality and the elucidation of reaction mechanisms play an important key role in the development and production of industrial processes. Currently, their products are used in antibody characterization,... 

Emili AQ et al. Large-scale functional analysis using peptide or protein arrays. Nature Biotechnol 2000 18 393-397. Fung ET et al. Protein biochips for differential profiling. Curr Opin Biotechnol 2001 12 65-69. 

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