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OJBTM
Online Journal of Bioinformatics ©
Volume 13(3):400-417,
2012.
Amino acid sequences based phylogenetic and motif
assessment of lipases from different organisms
Santosh Kumar Yadav1,
Amit Kumar Dubey2, Sangeeta Yadav2, Deepali
Bisht1, Nandan Singh Darmwal1
and Dinesh Yadav2*
1Department
of Microbiology (Centre of Excellence), Dr. R.M. L.
Avadh University, Faizabad, 2Department of
Biotechnology, D.D.U Gorakhpur University, Gorakhpur, Uttar Pradesh, India. Present
address: 2Australian Centre for Plant Functional
Genomics, University of Adelaide, PMB1, Glen Osmond, South Australia 5064
ABSTRACT
Yadav
SK, Dubey AK, Yadav S, Bisht D, Darmwal
NS, Yadav D., Amino acid sequences based phylogenetic and motif assessment of
lipases from different organisms, Onl J Bioinform., 13(3):400-417, 2012. Bacterial, fungal, plant and animal lipases
amino acid sequences retrieved from different databases were analyzed for homology search, multiple sequence alignment,
phylogenetic and motif assessment using different bioinformatics tools. The multiple
sequence alignment revealed different conserved stretches of amino acids
exclusively for each groups along with a highly conserved glycine residue for
plant and animal lipases. The phylogenetic tree constructed for different
groups uniformly showed two major clusters divided into several sub-clusters
based on the closeness of the lipases protein sequences irrespective of the
source organisms. The 64 bacterial lipases protein sequences were distributed
into two main clusters with various sub-clusters revealing the rich diversity
of lipases among diverse bacterial strains. The fungal lipase protein sequences
based phylogenetic tree revealed two major clusters for representing two
important groups namely ascomycota and basidomycota with several sub-clusters. The Aspergillus species
were placed closely in the cluster along with Penicillium
species. The distributions of three conserved motifs were analyzed among these lipases. Bacterial lipases motifs
represented α/β hydrolase fold family while fungal, animal and plant
lipases revealed lipase 3 families though all represented the same Clan 0028.
The motif sequences of these lipases also showed five conserved amino acids
residues GHSAG for bacterial, fungal and plant lipases though it was not
observed in the case of animal lipases.
Key Words: Lipases, Phylogenetic
tree, Motif analysis, Bacterial, Plant, Fungal, Animal
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