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OJBTM
Online
Journal of Bioinformatics ©
Volume 14 (3): 274-281, 2013
Homology Modelling of Laccase
from White-rot
Fungus, Schizophyllum commune.
G Vidyasagar Reddy1,
Ch Vijaya2 and K
Venkateswarlu1*
Department of
Biotechnology1/Marine
Biology2, Vikrama Simhapuri
University, Nellore 524001,
India
ABSTRACT
Reddy
GV, Vijaya CH, Venkateswarlu K., Homology
Modelling of Laccase from
White-rot Fungus, Schizophyllum
commune, Onl J Bioinform., Volume 14
(3): 274-281, 2013. Laccases are oxidoreductases
belonging to the multinuclear copper-containing oxidases that
have high
industrial demand. Laccase
from Schizophyllum commune
is
acidic, hydrophilic and stable, containing 518 amino acids
with a molecular
weight of
55868.8. Homology modelling
was done
through Modeller9v7 software using
PDB:
2HRG_A as a template. Energy minimization
was done using GROMOS 96 force field. The predicted 3D
structure has 11 helices
and 29 strands. Pymol
was used to establish the final 3D structure. Ramachandran
Plot revealed 93.8% of the residues in most favored regions. Prosa
Z–Scores of
the template protein and laccase
from S. commune are -7.86
and -7.48, respectively, suggesting
similarity between the two structures. ERRAT
value of 82.897 indicated validation of the predicted
structure. Proknow functional
annotation revealed new possibilities of
the enzyme’s usage in industrial processes. This modeled
structure can be used
to predict active sites, and to identify the substrates and cofactor, if any, and
regulation in the synthesis and
function of the enzyme through docking studies.
Key words: Laccase, Lignolytic
enzyme, White-rot fungi, Homology modelling,
Functional annotation