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Int. J. Mol. Sci. 2014, 15(6), 11082-11099; doi:10.3390/ijms150611082
Article

The Structure and Dynamics of BmR1 Protein from Brugia malayi: In Silico Approaches

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Received: 28 January 2014; in revised form: 25 March 2014 / Accepted: 4 June 2014 / Published: 19 June 2014
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Abstract: Brugia malayi is a filarial nematode, which causes lymphatic filariasis in humans. In 1995, the disease has been identified by the World Health Organization (WHO) as one of the second leading causes of permanent and long-term disability and thus it is targeted for elimination by year 2020. Therefore, accurate filariasis diagnosis is important for management and elimination programs. A recombinant antigen (BmR1) from the Bm17DIII gene product was used for antibody-based filariasis diagnosis in “Brugia Rapid”. However, the structure and dynamics of BmR1 protein is yet to be elucidated. Here we study the three dimensional structure and dynamics of BmR1 protein using comparative modeling, threading and ab initio protein structure prediction. The best predicted structure obtained via an ab initio method (Rosetta) was further refined and minimized. A total of 5 ns molecular dynamics simulation were performed to investigate the packing of the protein. Here we also identified three epitopes as potential antibody binding sites from the molecular dynamics average structure. The structure and epitopes obtained from this study can be used to design a binder specific against BmR1, thus aiding future development of antigen-based filariasis diagnostics to complement the current diagnostics.
Keywords: Brugia malayi; BmR1 protein; protein structure prediction; epitope prediction; molecular dynamics simulation Brugia malayi; BmR1 protein; protein structure prediction; epitope prediction; molecular dynamics simulation
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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MDPI and ACS Style

Khor, B.Y.; Tye, G.J.; Lim, T.S.; Noordin, R.; Choong, Y.S. The Structure and Dynamics of BmR1 Protein from Brugia malayi: In Silico Approaches. Int. J. Mol. Sci. 2014, 15, 11082-11099.

AMA Style

Khor BY, Tye GJ, Lim TS, Noordin R, Choong YS. The Structure and Dynamics of BmR1 Protein from Brugia malayi: In Silico Approaches. International Journal of Molecular Sciences. 2014; 15(6):11082-11099.

Chicago/Turabian Style

Khor, Bee Y.; Tye, Gee J.; Lim, Theam S.; Noordin, Rahmah; Choong, Yee S. 2014. "The Structure and Dynamics of BmR1 Protein from Brugia malayi: In Silico Approaches." Int. J. Mol. Sci. 15, no. 6: 11082-11099.


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