Evolutionary trace analysis of plant haemoglobins: implications for site-directed mutagenesis.
Journal Title: Bioinformation - Year 2007, Vol 1, Issue 9
Abstract
Haemoglobins are found ubiquitously in eukaryotes and many bacteria. In plants, haemoglobins were first identified in species, which can fix nitrogen via symbiosis with bacteria. Recent findings suggest that another class of haemoglobins termed as nonsymbiotic haemoglobins are present through out the plant kingdom and are expressed differentially during plant development. Limited data available suggests that non-symbiotic haemoglobins are involved in hypoxic stress and oversupply of nutrients. Due to lack of information on structurally conserved, functionally important residues in non-symbiotic haemoglobins, further studies to elucidate the molecular mechanisms underlying the biological role are hampered. To determine functionally important residues in non-symbiotic haemoglobins, I have analyzed a number of sequences from plant haemoglobin family, in the context of the known crystal structures of plant by evolutionary trace method. Results indicate that the, evolutionary trace method like conventional phylogentic analysis, could resolve phylogentic relationships between plant haemoglobin family. Evolutionary trace analysis has identified candidate functional (trace) residues that uniquely characterize the heme-binding pocket, dimer interface and possible novel functional surfaces. Such residues from specific three-dimensional clusters might be of functional importance in nonsymbiotic haemoglobins. These data, together with our improved knowledge of possible functional residues, can be used in future structure-function analysis experiments.
Authors and Affiliations
Duvvuru Muni Rajasekhara Reddy
Keywords
Related Articles
- EP ID EP86382
- DOI 10.6026/97320630001370
- Views 147
- Downloads 0
Binding site prediction of galanin peptide using evolutionary trace method.
Galanin is a neuropeptide with aminoacid length ranging from 29 to 31 is widely distributed in central and peripheral nervous system. Galanin controls various psychological processes such as sensation of pain, learning,...
SeqCalc: A portable bioinformatics software for sequence analysis.
Rapid genome sequencing enriched biological databases with enormous sequence data. Yet it remains a daunting task to unravel this information. However experimental and computational researchers lead their own way in anal...
RegStatGel: proteomic software for identifying differentially expressed proteins based on 2D gel images.
Image analysis of two-dimensional gel electrophoresis is a key step in proteomic workflow for identifying proteins that change under different experimental conditions. Since there are usually large amount of proteins and...
Intergenics: A tool for extraction of intergenicregions.
For the past one decade, there has been considerable explosion of interest in searching novel regulatory elements in the intergenic region between the protein coding regions. The microbial genomes are the most exploited...
Modeling of pyruvate decarboxylases from ethanol producing bacteria.
Pyruvate decarboxylase (PDC) is a key enzyme in homoethanol fermentation process, which decarboxylates 2-keto acid pyruvate into acetaldehyde and carbon dioxide. PDC enzymes from potential ethanol-producing bacteria such...