Title

Authors

Affiliation

¹Department of Biotechnology, Research Institute of Physiology and Biotechnology, University of Zanjan, Zanjan, Iran; ²Department of Chemistry, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia; ³Department of Pharmacy, Faculty of Medicine, University of Malaya, Kuala Lumpur, Malaysia.

Email

vaslanzadeh@gmail.com; *Corresponding author

Article Type

Hypothesis

Date

Received August 18, 2012; Accepted August 20, 2012; Published September 11, 2012

Pathogenesis-related protein 1a of Hordeum vulgare subsp. Vulgare (HvPR-1a) is induced by various pathogens and stress related factors. It plays important roles in plant defense system. Since the discovery of HvPR-1a a great deal of research has been focused on its isolation and characterization. However, three dimensional structure of HvPR-1a is still unknown. 3D structure can be used for determining protein function, and identifying novel protein folds and potential targets for regulation. The protein model was developed using MODELLER 9v10. Physicochemical characterization and functional annotation of the model carried out with Expasy’s ProtParam server and three different conserved domain finding programs including InterProScan, Proteins Families Database (Pfam), and NCBI Conserved Domains Database (NCBI-CDD). Applying validation programs revealed that the model has good quality and the RMSD value is 0.7. The predicted model submitted in Protein Model Database, PMDB for public use. This model will be used in wide range of studies for functional analysis and improvement activity of the protein.

Keywords

HvPR-1a, Homology modeling, Three dimensional structure, MODELLER, Expasy’s ProtParam server

Citation

Aslanzadeh & Ghaderian, Bioinformation 8(17): 807-811 (2012)
 

Edited by

P Kangueane

ISSN

0973-2063

Publisher

Biomedical Informatics

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.