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Mallika Veeramalai

Publications and source records attributed to Mallika Veeramalai.

2 recordsLinked to original sources

Isolation and expression of the reverse transcriptase component of the Canis familiaris telomerase ribonucleoprotein (dogTERT).

The enzyme telomerase plays a crucial role in cellular proliferation and tumorigenesis. Telomerase is an RNA-directed DNA polymerase composed minimally of an RNA subunit (TR) and a catalytic protein component (TERT). The protein component acts as a reverse transcriptase (RT) and catalyses the addition of telomeric repeats onto the ends of chromosomes using the RNA subunit as a template. While both the RNA and catalytic subunits are essential for telomerase activity, the TERT component of telomerase is thought to be the primary determinant for enzyme activity as expression of TERT is largely limited to cells with telomerase activity. We describe here the isolation and sequence characterization of the telomerase catalytic subunit from Canis familiaris (dog), dogTERT. The predicted protein consists of 1123-aa residues and contains all the signature motifs of the TERT family members. Sequence comparisons with previously identified mammalian TERT proteins demonstrate that dogTERT shows the highest level of sequence similarity to the human TERT protein, supporting the dog as a model system for telomerase-based studies. Further, we demonstrate that TERT mRNA expression is associated with telomerase activity in canine-cultured cells, similar to TERT expression in human cells. This data will allow for further investigation of telomerase in canine malignancies as well as the development of the dog as a model system for human telomerase investigations.

Amino Acid Sequence↗

MSAT: a multiple sequence alignment tool based on TOPS.

This article describes the development of a new method for multiple sequence alignment based on fold-level protein structure alignments, which provides an improvement in accuracy compared with the most commonly used sequence-only-based techniques. This method integrates the widely used, progressive multiple sequence alignment approach ClustalW with the Topology of Protein Structure (TOPS) topology-based alignment algorithm. The TOPS approach produces a structural alignment for the input protein set by using a topology-based pattern discovery program, providing a set of matched sequence regions that can be used to guide a sequence alignment using ClustalW. The resulting alignments are more reliable than a sequence-only alignment, as determined by 20-fold cross-validation with a set of 106 protein examples from the CATH database, distributed in seven superfold families. The method is particularly effective for sets of proteins that have similar structures at the fold level but low sequence identity. The aim of this research is to contribute towards bridging the gap between protein sequence and structure analysis, in the hope that this can be used to assist the understanding of the relationship between sequence, structure and function. The tool is available at http://balabio.dcs.gla.ac.uk/msat/.

Algorithms↗