Abstract
This study is focus on Homology modelling of few Leguminosae family species which are found in Gujarat state, INDIA. There are three subfamilies of Leguminosae family which are Fabaceae (Papilionaceae), Caesalpiniaceae and Mimosaceae. Multiple sequence alignment carried out of few species’ rbcL protein sequences in each subfamily and conserved amino acid considered for homology modelling. Evolutionarily related proteins have similar sequences and naturally occurring homologous proteins have similar protein structure. It has been shown that three-dimensional protein structure is evolutionarily more conserved than would be expected on the basis of sequence conservation alone; we found that there are few amino acids which are common with same base pairs in each sub-family even though they are from different genus. There is no Protein structure available of conserved amino acids in PDB database of our study so we did homology modelling of three rbcL protein sequences (one from each sub family) which are found conserved in Multiple sequence alignment and structure validation with Ramachandran Plot was carried out and CASTp server was used to find out active sites in predicted protein structure and finally function of each predicted protein reported after this homology modeling of few conserved rbcL amino acid sequences in Leguminosae family.
Highlights
Leguminosae familyLeguminosae family contains species of Plants, Herbs, Shrubs, and Trees
Our present study describes the three 3D models of rbcL protein sequences which found conserved in multiple sequence alignment and further three protein structure predicted through homology modelling
We have considered around 266 species which are found in Gujarat state of India [7,8]
Summary
Leguminosae family contains species of Plants, Herbs, Shrubs, and Trees. Legumes are used as crops, forages and green manures; they synthesize a wide range of natural products such as flavours, drugs, poisons and dyes. Legumes are able to convert atmospheric nitrogen into nitrogenous compounds useful to plants [1] This is achieved by the presence of root nodules containing bacteria of the genus Rhizobium These bacteria have a symbiotic relationship with Legumes, fixing free nitrogen for the plants; in return legumes supply the bacteria with a source of fixed carbon produced by photosynthesis. The most common gene used for plant phylogenetic analyses is the plastid-encoded rbcL gene This single copy gene is approximately 1430 base pairs in length and is free from length mutations except at the far 3’ end. Recent genome sequencing projects have provided massive amount of data, many of these genomes are still not fully annotated and consist of genes/proteins with unknown function and structure This is due to several limitations, such as the cost and time required for experimental approaches [5]. In addition sequence and structural analysis and functional annotation were done [6]
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