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OJBTM
Online
Journal of Bioinformatics ©
Amplification, In-silico
classification, characterization and molecular modeling of Histone H2B gene
from Setaria cervi
Sudhanshu Shekhar Yadav1, Vinay Kumar
Singh2, Eva Liebau3, Sushma Rathaur1*
1Department of
Biochemistry, 2Centre for Bioinformatics, Faculty of Science,
Banaras Hindu University, Varanasi 221005, U.P., India 3Westfalische
Wilhelms-Uinversitat, Institute of Animal Physiology,
Department of Molecular Physiology, Hindenburgplatz-55, Muenster, Germany.
ABSTRACT
Yadav SS, SinghVK, Liebau
E, Rathaur S., Amplification, In-silico classification, characterization and
molecular modeling of Histone H2B gene from Setaria cervi, Online J Bioinform, 13(2):232-245, 2012. Setaria cervi was screened for antifilarial agents by
gene identification, behavior and genome organization. H2B gene was identified
using primers generated from closely related species Brugia malayi. A 0.75kb amplified product from
cDNA of S. cervi
was used as template; gene sequences (JQ622388; AFI23673) were 83.3% of Brugia malayi and Loa loa.
Functional domain analysis with Interproscan server
revealed an amplified putative protein similar to Histone H2B (IPR000558),
Histone core (IPR007125) and Histone fold (IPR009072) patterns. Model structure
(PM0078101) and classification lineage (1.10.20.10) suggested that the existing
protein was a histone subunit consisting of an alpha fold with orthogonal
bundle architecture. H2B-DNA interactions stabilize the nucleosome and H2B
could modulate chromatin structure during DNA repair, replication,
transcription and chromatin compaction. DNA-Histone protein interaction showed
that residues 61Asn, 62Lys, 63Arg, 67Ser, 69Arg,
67Arg, 89Ser, 93Lys, 97Lys, 99Asn
and 102Lys of H2B protein binded with wrapped DNA in
genome of S. cervi.
H2B histone protein could be a potential drug target for filariasis
since inhibition of histone protein (H2B) synthesis blocks the cell division at
S-phase of cell cycle which could prevent its transmission.
Keywords: Amplification, Homology modeling, Histone H2B, Setaria cervi, Filariasis,
Drug target.
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