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OJBTM
Online
Journal of
Bioinformatics ©
Volume 12(2):345-356, 2011
Model of a Zn2+ binding domain of peptidase M48 Ste24p from Cyanothece Sp. (Strain PCC 7822).
Patra MC, Rath SN*, Bhoi GK, Pradhan SK
Department of Bioinformatics, Orissa University of Agriculture and
Technology, Bhubaneswar, Orissa, India- 751003
ABSTRACT
Patra MC, Rath SN, Bhoi GK, Pradhan SK, Model of a Zn2+ Binding Domain of
Peptidase M48 Ste24p from Cyanothece Sp. (Strain PCC
7822), Onl J Bioinform., 12(2):345-356,
2011. A
three dimensional model for the catalytic domain of Peptidase M48 Ste24p from Cyanothece sp. (strain PCC 7822) was computed
using homology modeling and molecular dynamics simulation. Modeling was
performed for the 228 amino acids containing the HEXXH motif, which is
implicated with metal binding in M48 family of metallopeptidases. The Zinc atom
was found to coordinate tetrahedrally with His459,
His463, Glu506 and His549 of the model that substantiates the existing
experimental information on the active site of metallopeptidases. Consequently,
the tertiary structure reported here might be able to justify the molecular
function and catalytic properties of the novel metallopeptidases of
cyanobacteria. The coordinates of the model can be downloaded at
http://mi.caspur.it/PMDB using PMDB ID: PM0077456.
Key Words:
Cyanobacteria, Cyanothece sp., HEXXH
motif, Metallopeptidase, Homology modeling, Molecular dynamics simulation.
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