CMP Promoters Database: A systematic study on site-specific transcription factors in CMP genes

J Biochem Tech

Volume 1, Issue 3, April 2009, Page No. 85-87

CMP Promoters Database: A systematic study on site-specific transcription factors in CMP genes

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Meera A, Lalitha Rangarajan, Savithri Bhat

Department of Biotechnology, B.M.S College of Engineering, Bangalore -560 019, India

Received: 17 March 2008 / Received in revised form: 5 February 2009, Accepted: 31 April 2009 Published online: 14 May 2009

Abstract

CMPP Database (Central Metabolic Pathway Promoter Database)
consists of manually annotated regulatory sequences/motif of genes
controlling Metabolic Pathways (http://cmpp.biodbs.info) such as
Glycolysis’ and Krebs’ cycle. The CMPP software package written
in Microsoft Visual Basics & MS Access was also developed for
searching & updating the CMPP database. This database was
further used to study the relationship between 10 transcription
factors involved in the non-coding upstream region of CMP genes.
There is an existence of common motifs between the genes
encoding enzymes involved in glycolysis and Krebs cycle revealing
an evolutionary relation between the genes of the two pathways.
However, some of the common motif such as TATA uncommon
motifs as NKX and AP2 making up the structural feature of the noncoding
genes are absent from few genes.

Keywords: Non-coding sequence, Phylogeny, TCA, Glycolysis,
TRANSFAC, Promoter, Database, Central Metabolic Pathway.

Abbreviations: CMP - Central Metabolic Pathway, TF -
Transcription Factor, TFBS -Transcription Factor Binding Site,
TCA - Tri Carboxylic Acid cycle, EMBL - European Molecular
Biology Laboratory, RNA - RiboNucleic Acid, VB - Visual Basics

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J Biochem Tech

Volume 1, Issue 3, April 2009, Page No. 85-87




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