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      Protein profile analysis of Malaysian snake venoms by two-dimensional gel electrophoresis

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          Abstract

          Snake venoms comprise a highly complex mixture of proteins, which requires for their characterization the use of versatile two-dimensional electrophoresis techniques. In the present study, venoms obtained from eight snakes (Ophiophagus hannah, Naja kaouthia, Naja sumatrana, Bungarus fasciatus, Trimeresurus sumatranus, Tropidolaemus wagleri, Enhydrina schistosa and Calloselasma rhodostoma) commonly found in Malaysia were separated based on two independent properties, isoelectric point (pI) and molecular weight (MW). Many differences in snake venoms at the inter-family, inter-subfamily, inter-genus and inter-species levels were revealed. Notably, proteins from individuals of the Viperidae family - Trimeresurus sumatranus, Tropidolaemus wagleri and Calloselasma rhodostoma - were found to be numerous and scattered by the two-dimensional gel electrophoresis (2DE) specifically in regions between 37 and 100 kDa compared to the Elapidae venom proteins. The latter were clustered at the basic and lower molecular mass region (less than 20 kDa). Trains of spots were commonly observed, indicating that these proteins may be derived from post-translational modifications. Ophiophagus hannah (Elapidae) revealed a great amount of protein spots in the higher molecular mass range when compared to Enhydrina schistosa, Naja kaouthia, Naja sumatrana and Bungarus fasciatus. Overall 2DE showed large differences in the venom profile of each species, which might be employed as an ancillary tool to the identification of venomous snake species.

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          Prediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence.

          Post-translational modifications (PTMs) occur on almost all proteins analyzed to date. The function of a modified protein is often strongly affected by these modifications and therefore increased knowledge about the potential PTMs of a target protein may increase our understanding of the molecular processes in which it takes part. High-throughput methods for the identification of PTMs are being developed, in particular within the fields of proteomics and mass spectrometry. However, these methods are still in their early stages, and it is indeed advantageous to cut down on the number of experimental steps by integrating computational approaches into the validation procedures. Many advanced methods for the prediction of PTMs exist and many are made publicly available. We describe our experiences with the development of prediction methods for phosphorylation and glycosylation sites and the development of PTM-specific databases. In addition, we discuss novel ideas for PTM visualization (exemplified by kinase landscapes) and improvements for prediction specificity (by using ESS--evolutionary stable sites). As an example, we present a new method for kinase-specific prediction of phosphorylation sites, NetPhosK, which extends our earlier and more general tool, NetPhos. The new server, NetPhosK, is made publicly available at the URL http://www.cbs.dtu.dk/services/NetPhosK/. The issues of underestimation, over-prediction and strategies for improving prediction specificity are also discussed.
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            A phylogeny of four mitochondrial gene regions suggests a revised taxonomy for Asian pitvipers (Trimeresurus and Ovophis).

            We present a phylogeny of the Asian pitvipers, based on 2403 bp of four mitochondrial gene regions. All but six known species of Trimeresurus sensu stricto (s.s.) as currently defined, as well as multiple populations of widespread species, which may yet be described as full species, and representatives of all other Asian pitviper genera, are included. Both the greater sampling and larger dataset provide improved resolution over previous studies and support the existence of distinct species groups within Trimeresurus s.s. Although all but two species currently referred to this genus form a monophyletic group, morphological and molecular analyses identify four subgroups that warrant recognition at the generic level. We propose a new generic arrangement to reflect these findings. We also highlight the non-monophyly of Ovophis, and propose a new genus to accommodate a species formerly assigned to Ovophis. Copyright 2004 Elsevier Inc.
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              Venoms: Chemistry and Molecular Biology

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                Author and article information

                Contributors
                Role: ND
                Role: ND
                Role: ND
                Role: ND
                Role: ND
                Journal
                jvatitd
                Journal of Venomous Animals and Toxins including Tropical Diseases
                J. Venom. Anim. Toxins incl. Trop. Dis
                Centro de Estudos de Venenos e Animais Peçonhentos - CEVAP, Universidade Estadual Paulista - UNESP (Botucatu )
                1678-9199
                2010
                : 16
                : 4
                : 623-630
                Affiliations
                [1 ] Monash University Malaysia
                [2 ] International Medical University Malaysia
                [3 ] University of Malaya Malaysia
                Article
                S1678-91992010000400013
                10.1590/S1678-91992010000400013
                fd47f1fc-a940-4094-a1ff-86f30eb1f24a

                http://creativecommons.org/licenses/by/4.0/

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                SciELO Brazil

                Self URI (journal page): http://www.scielo.br/scielo.php?script=sci_serial&pid=1678-9199&lng=en
                Categories
                TOXICOLOGY
                TROPICAL MEDICINE

                Toxicology,Infectious disease & Microbiology
                snake venom,protein profile analysis,two-dimensional gel electrophoresis,SDS-PAGE

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