In silico sequence analysis and homology modeling of predicted beta-amylase 7-like protein in Brachypodium distachyon L.
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Date
2014-01-10
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Plovdiv University Press “Paisii Hilendarski”
Abstract
Beta-amylase (β-amylase, EC 3.2.1.2) is an enzyme that catalyses hydrolysis of glucosidic bonds in polysaccharides. In this study, we analyzed protein sequence of predicted beta-amylase 7-like protein in Brachypodium distachyon. pI (isoelectric point) value was found as 5.23 in acidic character, while the instability index (II) was found as 50.28 with accepted unstable protein. The prediction of subcellular localization was revealed that the protein may reside in chloroplast by using CELLO v.2.5. The 3D structure of protein was performed using comparative homology modeling with SWISS-MODEL. The accuracy of the predicted 3D structure was checked using Ramachandran plot analysis showed that 95.4% in favored region. The results of our study contribute to understanding of β-amylase protein structure in grass species and will be scientific base for 3D modeling of beta-amylase proteins in further studies.
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Keywords
Brachypodium distachyon, β-amylase, homology modeling, 3D structure, Swiss-Model